ExperimentRoboticCellPreparation

ExperimentRoboticCellPreparation[UnitOperations]⟹Protocol

creates a Protocol object that will perform the robotic cell preparation specified in UnitOperations.

ExperimentRoboticCellPreparation allows for the inoculation, incubation, quantification, media changing, imaging, etc. of cell samples on a robotically integrated liquid or colony handler, in addition to sample preparations supported by ExperimentRoboticSamplePreparation. To prepare cell-free samples robotically, please consult ExperimentRoboticSamplePreparation. To prepare cell samples both manually and robotically, please consult ExperimentCellPreparation.

Experimental Principles

Figure 1.1: Example workflows that can be performed via ExperimentRoboticCellPreparation. The first workflow, conducted on a robotic liquid handler deck, includes the following steps: 1) inoculating the cell suspension sample into liquid media, 2) incubating the inoculated cells on the deck, 3) measuring the optical density (OD) of the cells via nephelometry, and 4) lysing the cultured cells to obtain a crude extract. The second workflow, conducted on a colony handler deck, includes the following steps: 1) labeling OmniTrays containing grown colonies, 2) capturing images of the colonies, 3) quantifying colonies on the deck, and 4) picking colonies of interest into multi-well plates with media for future cultivation.

Figure 1.2: The available unit operations that can be chained together in a RoboticCellPreparation workflow.

Instrumentation

bioSTAR

Figure 2.1.1: Overhead view of the liquid handler instrument deck.

Figure 2.1.2: A view of the integrations that are attached to the liquid handler instrument deck.

QPix 420 HT

Figure 2.2.1: Overview of the ColonyHandler WorkCell. This figure provides a comprehensive view of the ColonyHandler, showcasing its layout and main components. The QPix instrument is designed to perform multiple tasks including imaging solid media plates, picking colonies from solid media, and plating suspended colonies onto solid media. Its bed features a deck with designated positions for multi-well and single-well SBS plates, a light table, and wash baths for cleaning the pins before and during the process. Above the deck, a robotic gantry moves and is equipped with several components: a pipette nozzle, an LED-based light source, preset filter pairs for fluorescence excitation and emission wavelengths, a monochrome CCD camera, and a position to accept a ColonyHandlerHeadCassette. The robotic gantry moves seamlessly between tasks, and have the capacity to capture multiple types of images.

Figure 2.2.2: Overview of the ColonyHandler WorkCell integrations that are attached to the colony handler instrument deck.

ImageColonies

Options

The options that specify the parameters of this unit operation.

Pattern: {_Rule..}

General

Sample

The samples that contained microbial colonies that are imaged.

Default Value: Null

Pattern Description: Container with Well Position or Sample or Container or Null.

Programmatic Pattern: (ObjectP[{Object[Sample], Object[Container]}] | _String) | {Alternatives @@ Flatten[AllWells[NumberOfWells -> $MaxNumberOfWells]] | LocationPositionP, ObjectP[{Object[Container]}] | _String}

Index Matches to: Sample

SampleLabel

A user defined word or phrase used to identify the input samples to be imaged, for use in downstream unit operations.

Default Value: Automatic

Pattern Description: A string.

Programmatic Pattern: _String | Automatic

Index Matches to: Sample

SampleContainerLabel

A user defined word or phrase used to identify the container of the input samples to be imaged, for use in downstream unit operations.

Default Value: Automatic

Pattern Description: A string.

Programmatic Pattern: _String | Automatic

Index Matches to: Sample

Instrument

The instrument used to image colonies on solid media. For more details on imaging mechanism, refer to Figure 3.1.

Default Value: Model[Instrument, ColonyHandler, QPix 420 HT]

Pattern Description: An object of type or subtype Model[Instrument, ColonyHandler] or Object[Instrument, ColonyHandler]

Programmatic Pattern: ObjectP[{Model[Instrument, ColonyHandler], Object[Instrument, ColonyHandler]}]

Imaging

ImagingStrategies

For each Sample, the end goals for capturing images. ImagingStrategies can be either a single end goal of simple visualization or a list of multiple end goals. The options include BrightField, BlueWhiteScreen, and multiple fluorescence imaging techniques. BrightField imaging is essential for obtaining baseline images and is required if other imaging strategies are employed. BlueWhiteScreen is used to distinguish recombinant colonies with disrupted lacZ (white colonies) from blue colonies using an absorbance filter. Fluorescence imaging allows for the visualization of colonies with fluorescent dyes or proteins. For more details on imaging settings and recommended fluorophores for various imaging strategies, refer to Figure 3.2.

Default Value: BrightField

Pattern Description: Multiple Imaging Strategies or Single Imaging Strategy.

Index Matches to: Sample

ExposureTimes

For each Sample, and for each imaging strategy, a single length of time to allow the camera to capture an image. An increased exposure time leads to brighter images based on a linear scale. When set as Automatic, optimal exposure time is automatically determined during experiment. This is done by running AnalyzeImageExposure on images taken with suggested initial exposure times. The process adjusts the exposure time for subsequent image acquisitions until the optimal exposure time is found. See Figure 3.2 for more information about suggested initial exposure times for various imaging strategies.

Default Value: Automatic

Pattern Description: Multiple Exposure Times or Single Exposure Time.

Programmatic Pattern: ({(RangeP[1*Millisecond, 2000*Millisecond] | Automatic)..} | (RangeP[1*Millisecond, 2000*Millisecond] | Automatic)) | Automatic

Index Matches to: Sample

Post Experiment

SamplesInStorageCondition

The non-default conditions under which the SamplesIn of this experiment should be stored after the protocol is completed. If left unset, SamplesIn will be stored according to their current StorageCondition.

Default Value: Null

Pattern Description: {AmbientStorage, Refrigerator, Freezer, DeepFreezer, CryogenicStorage, YeastIncubation, YeastShakingIncubation, BacterialIncubation, BacterialShakingIncubation, MammalianIncubation, ViralIncubation, CrystalIncubation, AcceleratedTesting, IntermediateTesting, LongTermTesting, UVVisLightTesting} or Disposal or Null.

Programmatic Pattern: (Null | (Alternatives[SampleStorageTypeP | Disposal])) | Null

Index Matches to: Sample

IncubateCells

Options

The options that specify the parameters of this unit operation.

Pattern: {_Rule..}

General

Sample

The cell samples that are incubated.

Default Value: Null

Pattern Description: Container with Well Position or Sample or Container or Null.

Programmatic Pattern: (ObjectP[{Object[Sample], Object[Container]}] | _String) | {Alternatives @@ Flatten[AllWells[NumberOfWells -> $MaxNumberOfWells]], ObjectP[{Object[Container]}] | _String}

Index Matches to: Sample

SampleLabel

A user defined word or phrase used to identify the input samples to be incubated, for use in downstream unit operations.

Default Value: Automatic

Pattern Description: A string.

Programmatic Pattern: _String | Automatic

Index Matches to: Sample

SampleContainerLabel

A user defined word or phrase used to identify the container of the input samples to be incubated, for use in downstream unit operations.

Default Value: Automatic

Pattern Description: A string.

Programmatic Pattern: _String | Automatic

Index Matches to: Sample

Incubator

The instrument used to cultivate cell cultures under specified conditions, including, Temperature, CarbonDioxide, RelativeHumidity, ShakingRate, and ShakingRadius.

Default Value: Automatic

Default Calculation: If Preparation is set to Robotic, automatically set to Model[Instrument, Incubator, "STX44-ICBT with Humidity Control"] for Mammalian cell culture, or set to Model[Instrument, Incubator, "STX44-ICBT with Shaking"] for Bacterial and Yeast cell culture. If Preparation is Manual, is automatically set to an incubator that meets the requirements of desired incubation conditions (CellType, Temperature, CarbonDioxide, RelativeHumidity, Shake) and footprint of the container of the input sample. See the helpfile of the function IncubateCellsDevices for more information about operating parameters of all incubators.

Pattern Description: An object of type or subtype Model[Instrument, Incubator] or Object[Instrument, Incubator] or Null.

Programmatic Pattern: ((Null | ObjectP[{Model[Instrument, Incubator], Object[Instrument, Incubator]}]) | Automatic) | Null

Index Matches to: Sample

Time

The duration during which the input cells are incubated inside of cell incubators. If the IncubationStrategy is QuantificationTarget, this option represents the maximum duration for which the cells are incubated while attempting to reach the MinQuantificationTarget; if this target is not reached within the specified Time, the FailureResponse is executed.

Default Value: Automatic

Default Calculation: If Preparation is set to Robotic, automatically set to the shorter time of 3 hours and the DoublingTime of the cells in the sample. If Preparation is set to Manual and IncubationStrategy is set to Time, automatically set to the DoublingTime of the cells in the sample. If Preparation is set to Manual and IncubationStrategy is set to QuantificationTarget, automatically set to 12 Hour.

Pattern Description: Greater than or equal to 0 hours and less than or equal to 72 hours.

Programmatic Pattern: RangeP[0*Hour, $MaxCellIncubationTime] | Automatic

IncubationStrategy

The manner in which the end of the incubation period is determined. If the IncubationStrategy is Time, incubation will proceed until after the specified Time has elapsed from the beginning of incubation. If the IncubationStrategy is QuantificationTarget, incubation will proceed until either a) ALL of the samples in the protocol meet their respective MinQuantificationTargets or b) the Time has elapsed, whichever occurs first.

Default Value: Automatic

Default Calculation: If QuantificationMethod or any options defining quantification conditions are specified, automatically set to QuantificationTarget. Otherwise, automatically set to Time.

Pattern Description: Time or QuantificationTarget.

Programmatic Pattern: (Time | QuantificationTarget) | Automatic

Index Matches to: Sample

CultureAdhesion

The manner of cell growth the cells in the sample are thought to employ (i.e., SolidMedia, Suspension, and Adherent). SolidMedia cells grow in colonies on a nutrient rich substrate, suspended cells grow free floating in liquid media, and adherent cells grow as a monolayer attached to a substrate.

Default Value: Automatic

Default Calculation: Automatically set to match the CultureAdhesion value of the input sample if it is populated. Otherwise set to Suspension.

Pattern Description: Adherent, Suspension, or SolidMedia.

Programmatic Pattern: CultureAdhesionP | Automatic

Index Matches to: Sample

An empirically derived function used to convert the results of quantification measurements to a cell concentration, which is then compared to the MinQuantificationTarget.

Options

The options that specify the parameters of this unit operation.

Pattern: {_Rule..}

General

Sample

Input samples where colonies are growing that need to be transferred.

Default Value: Null

Pattern Description: Container with Well Position or Sample or Container or Null.

Programmatic Pattern: (ObjectP[{Object[Sample], Object[Container]}] | _String) | {Alternatives @@ Flatten[AllWells[NumberOfWells -> 384]], ObjectP[{Object[Container]}] | _String}

Index Matches to: Sample

Instrument

The instrument that is used to move cells to fresh liquid media in order to initiate a culture growth.

Default Value: Automatic

Default Calculation: If the source cells are on solid media and in a Object[Container,Plate], set to Object[Instrument,ColonyHandler,"Pinhead"]. If the source cells are in liquid media or freeze-dried powder and Preparation->Manual, set to the smallest Microbial pipette that fits the Volume. If the source cells are in an agar stab and Preparation->Manual, set to Model[Instrument, Pipette, "Eppendorf Research Plus P1000, Microbial"] if that will reach the bottom of DestinationMediaContainer. If that tip does not reach, set to a serological pipette. If the source cells are in frozen glycerol and Preparation->Manual, set to Model[Instrument, Pipette, "Eppendorf Research Plus P1000, Microbial"].

Pattern Description: An object of type or subtype Model[Instrument, ColonyHandler], Object[Instrument, ColonyHandler], Object[Instrument, Pipette], or Model[Instrument, Pipette] or Null.

Programmatic Pattern: ((Null | ObjectP[{Model[Instrument, ColonyHandler], Object[Instrument, ColonyHandler], Object[Instrument, Pipette], Model[Instrument, Pipette]}]) | Automatic) | Null

Index Matches to: Sample

TransferEnvironment

For each sample, the environment in which the inoculation will be performed. Containers involved in the inoculation will first be moved into the TransferEnvironment (with covers on), uncovered inside of the TransferEnvironment, then covered after the inoculation has finished -- before they're moved back onto the operator cart. This option is only applicable if InoculationSource is LiquidMedia or AgarStab and Preparation->Manual.

Default Value: Automatic

Default Calculation: If InoculationSource is LiquidMedia or AgarStab and Preparation->Manual, Automatically set to a biosafety Cabinet.

Pattern Description: An object of type or subtype Model[Instrument, BiosafetyCabinet] or Object[Instrument, BiosafetyCabinet] or Null.

Programmatic Pattern: ((Null | ObjectP[{Model[Instrument, BiosafetyCabinet], Object[Instrument, BiosafetyCabinet]}]) | Automatic) | Null

Index Matches to: Sample

For each sample, the pipette tips used to aspirate and dispense the cells into liquid media.

Default Value: Automatic

Default Calculation: If InoculationSource is LiquidMedia, AgarStab, FreezeDried, or FrozenGlycerol, automatically set to a tip that does not conflict with the incompatible materials of the cells that the tip will come in contact with, the amount being inoculated, and the source and destination containers of the inoculation (accessibility). For more information, please refer to the function TransferDevices[].

Pattern Description: An object of type or subtype Model[Item, Tips] or Object[Item, Tips] or Null.

Programmatic Pattern: ((Null | ObjectP[{Model[Item, Tips], Object[Item, Tips]}]) | Automatic) | Null

Index Matches to: Sample

TipType

For each sample, the type of pipette tips used to aspirate and dispense the cells during the inoculation. This option is only applicable if InoculationSource is LiquidMedia.

Default Value: Automatic

Default Calculation: If InoculationSource is LiquidMedia, AgarStab, FreezeDried, or FrozenGlycerol, automatically set to the TipType field of the calculated Tips that will be used to perform the inoculation.

Pattern Description: Normal, Barrier, WideBore, GelLoading, or Aspirator or Null.

Programmatic Pattern: ((Null | TipTypeP) | Automatic) | Null

Index Matches to: Sample

TipMaterial

For each sample, the material of the pipette tips used to aspirate and dispense the cells during the inoculation.

Default Value: Automatic

Default Calculation: If InoculationSource is LiquidMedia, AgarStab, FreezeDried, or FrozenGlycerol, automatically set to the chemistry of the calculated Tips that will be used to perform the inoculation.

Pattern Description: {ABS, PLA, Acrylic, AmorphousFluoropolymer, CPVC, CTFE, Cycloolefine, COC, Delrin, ECTFE, EPDM, ETFE, EVA, FEP, FFKM, HDPE, Hypalon, LDPE, NaturalRubber, NBR, Neoprene, Nitrile, Noryl, Nylon, PEEK, PEI, Perlast, PharmaPure, Polycarbonate, Polyester, Polyethylene, Polyisoprene, Polyolefin, Polyoxymethylene, Polypropylene, Polystyrene, Polyurethane, PVC, PCTFE, PETG, PF, PFA, PPS, PTFE, PVDF, SEBS, Silicone, SyntheticRubber, TFM, TPE, Tygon, UVPlastic, UVXPO, Viton}, {Aluminum, Alloy, AnodisedAluminum, Brass, Bronze, CarbonSteel, CastIron, Chrome, Copper, Elgiloy, Gold, Hastelloy, Lead, Magnesium, Molybdenum, Nickel, Niobium, Platinum, Silver, Steel, StainlessSteel, Titanium, Tungsten, Zinc}, {Cellulose, Cotton, Polyethylene, Polypropylene, PTFE, Nylon, PES, PLUS, PVDF, GlassFiber, GHP, UHMWPE, EPDM, DuraporePVDF, GxF, ZebaDesaltingResin, NickelResin, Silica, HLB}, {Silica, Alumina, ResinParticlesWithLatexMicroBeads, CrossLinkedDextranBeads, CrossLinkedPolystyrene, AerisCoreShell, KinetexCoreShell, CrossLinkedAgarose, Vydac218MS, JordiGel, Styrene, SilicaCompositeTWIN, BEH, CSH, HSS, CarboPacPA1, CarboPacPA10, BEH}, Polysulfone, Agate, AluminiumOxide, ZirconiumOxide, Cardboard, Ceramic, Epoxy, EpoxyResin, BorosilicateGlass, Glass, GlassyCarbon, Graphite, OpticalGlass, Porcelain, Quartz, UVQuartz, ESQuartz, FusedQuartz, IRQuartz, Oxidizer, Ruby, Sapphire, Silicon, Silver, Viton, Styrofoam, {VacuumMeltedStainlessSteel}, or Wood or Null.

Programmatic Pattern: ((Null | MaterialP) | Automatic) | Null

Index Matches to: Sample

SampleLabel

For each sample, the label of the sample that are being used in the experiment, which is used for identification elsewhere in sample preparation.

Default Value: Automatic

Pattern Description: A string or Null.

Programmatic Pattern: ((Null | _String) | Automatic) | Null

Index Matches to: Sample

The type of the media (Solid, Liquid, AgarStab, FreezeDried, or FrozenGlycerol) where the source cells are stored before the experiment. Note that for source type of FrozenGlycerol, the samples are scraped from top and resuspended into liquid media via pipette tips, while the source tube is chilled to remain frozen.

Default Value: Automatic

Default Calculation: If the source cells are in liquid media, automatically set to LiquidMedia. Otherwise if the source container is a plate, automatically set to SolidMedia, and if the source container is a vial or tube, automatically set to AgarStab. If the source container model is hermetic or an ampoule, automatically set to FreezeDried. If the source container is stored in freezer or -80 Celsius, automatically set to FrozenGlycerol.

Pattern Description: SolidMedia, LiquidMedia, AgarStab, FreezeDried, or FrozenGlycerol.

Programmatic Pattern: InoculationSourceP | Automatic

NumberOfReplicates

The number of destination containers to inoculate from a source colony.

Default Value: Null

Pattern Description: Greater than or equal to 2 in increments of 1 or Null.

Programmatic Pattern: GreaterEqualP[2, 1] | Null

WorkCell

Indicates the work cell that this primitive will be run on if Preparation->Robotic.

Default Value: Automatic

Default Calculation: Automatically set to microbioSTAR if Preparation->Robotic and InoculationSource is LiquidMedia. Automatically set to qPix if Preparation is Robotic and InoculationSource is SolidMedia. Otherwise set to Null.

Pattern Description: STAR, bioSTAR, microbioSTAR, or qPix or Null.

Programmatic Pattern: (WorkCellP | Automatic) | Null

Preparation

Default Calculation: Automatically set to 1/4 of the source sample container's volume.

Pattern Description: All or Volume or Null.

Programmatic Pattern: ((Null | (All | RangeP[1*Microliter, 20*Liter])) | Automatic) | Null

Index Matches to: Sample

Inoculate From Frozen Glycerol

NumberOfSourceScrapes

For each sample, the number of times that the sample is scraped with the tip before it is dipped into the liquid media and swirled.

For each sample, the number of columns of colonies to deposit in the destination container. This option is only applicable if InoculationSource is SolidMedia.

Default Value: Automatic

Default Calculation: If InoculationSource is SolidMedia, automatically set based on the below Table.

Pattern Description: Greater than 0 in increments of 1 or Null.

Programmatic Pattern: ((Null | GreaterP[0, 1]) | Automatic) | Null

Index Matches to: Sample

Nested Index Matches to: Sample

MaxDestinationNumberOfRows

For each sample, the number of rows of colonies to deposit in the destination container. This option is only applicable if InoculationSource is SolidMedia.

Default Value: Automatic

Default Calculation: If InoculationSource is SolidMedia, automatically set based on the below Table.

Pattern Description: Greater than 0 in increments of 1 or Null.

Programmatic Pattern: ((Null | GreaterP[0, 1]) | Automatic) | Null

Index Matches to: Sample

Nested Index Matches to: Sample

SamplesOutStorageCondition

The non-default conditions under which any new samples generated by this experiment should be stored after the protocol is completed. If left unset, the new samples will be stored according to their Models' DefaultStorageCondition.

Default Value: Null

Programmatic Pattern: (Null | (Alternatives[SampleStorageTypeP | Disposal])) | Null

Index Matches to: Sample

Nested Index Matches to: Sample

SamplesInStorageCondition

Default Value: Null

Programmatic Pattern: (Null | (Alternatives[SampleStorageTypeP | Disposal])) | Null

Index Matches to: Sample

MeasureWeight

Indicates if any solid samples that are modified in the course of the experiment should have their weights measured and updated after running the experiment. Please note that public samples are weighed regardless of the value of this option.

Default Value: False

Pattern Description: True or False or Null.

Programmatic Pattern: (Null | BooleanP) | Null

MeasureVolume

Indicates if any liquid samples that are modified in the course of the experiment should have their volumes measured and updated after running the experiment. Please note that public samples are volume measured regardless of the value of this option.

Default Value: False

Pattern Description: True or False or Null.

Programmatic Pattern: (Null | BooleanP) | Null

ImageSample

Indicates if any samples that are modified in the course of the experiment should be freshly imaged after running the experiment. Please note that public samples are imaged regardless of the value of this option.

Default Value: False

Pattern Description: True or False or Null.

Programmatic Pattern: (Null | BooleanP) | Null

LyseCells

Options

The options that specify the parameters of this unit operation.

Pattern: {_Rule..}

General

Sample

The cell samples whose membranes are to be ruptured in the cell lysis experiment.

Default Value: Null

Pattern Description: An object of type or subtype Object[Sample] or Object[Container] or a prepared sample or Null.

Programmatic Pattern: ObjectP[{Object[Sample], Object[Container]}] | _String

Index Matches to: Sample

Method

The set of reagents and recommended operating conditions which are used to lyse the cell sample and to perform subsequent extraction unit operations. Custom indicates that all reagents and conditions are individually selected by the user. Oftentimes, these can come from kit manufacturer recommendations.

Default Value: Custom

Pattern Description: An object of type or subtype Object[Method, LyseCells], Object[Method, Extraction], or Object[Method, Harvest] or Custom.

Programmatic Pattern: Custom | ObjectP[{Object[Method, LyseCells], Object[Method, Extraction], Object[Method, Harvest]}]

Index Matches to: Sample

CellType

The taxon of the organism or cell line from which the cell sample originates. Options include Bacterial, Mammalian, Insect, Plant, and Yeast.

Default Value: Automatic

Default Calculation: Automatically set to the CellType field of the input sample. If the CellType field of the input sample is Unspecified, automatically set to the majority cell type of the input sample based on its composition.

Pattern Description: Mammalian, Bacterial, or Yeast or Null.

Index Matches to: Sample

CultureAdhesion

Indicates how the input cell sample physically interacts with its container. Options include Adherent and Suspension (including any microbial liquid media).

Default Value: Automatic

Default Calculation: Automatically set to the CultureAdhesion field of the input samples.

Pattern Description: Adherent, Suspension, or SolidMedia or Null.

Programmatic Pattern: ((Null | CultureAdhesionP) | Automatic) | Null

Index Matches to: Sample

TargetCellularComponent

The class of biomolecule whose purification is desired following lysis of the cell sample and any subsequent extraction operations. Options include CytosolicProtein, PlasmaMembraneProtein, NuclearProtein, SecretoryProtein, TotalProtein, RNA, GenomicDNA, PlasmidDNA, Organelle, Virus and Unspecified.

Default Value: Automatic

Pattern Description: {CytosolicProtein, PlasmaMembraneProtein, NuclearProtein, SecretoryProtein, TotalProtein, RNA, GenomicDNA, PlasmidDNA, Organelle, Virus} or Unspecified or Null.

Programmatic Pattern: ((Null | (CellularComponentP | Unspecified)) | Automatic) | Null

Index Matches to: Sample

NumberOfLysisSteps

The number of times that the cell sample is subjected to a unique set of conditions for disruption of the cell membranes. These conditions include the LysisSolution, LysisSolutionVolume, MixType, MixRate, NumberOfMixes, MixVolume, MixTemperature, MixInstrument, LysisTime, LysisTemperature, and IncubationInstrument.

Default Value: Automatic

Default Calculation: Automatically set to the number of lysis steps specified by the selected Method. If Method is set to Custom, automatically set to 2 if any options for a second lysis step are specified, or 3 if any options for a third lysis step are specified. Otherwise, automatically set to 1.

Pattern Description: 1, 2, or 3.

Programmatic Pattern: (1 | 2 | 3) | Automatic

Index Matches to: Sample

NumberOfReplicates

The number of wells into which the cell sample is aliquoted prior to the lysis experiment and subsequent unit operations, including extraction of cellular components such as nucleic acids, proteins, or organelles.

Default Value: Null

Pattern Description: Greater than or equal to 2 and less than or equal to 200 in increments of 1 or Null.

Programmatic Pattern: RangeP[2, 200, 1] | Null

Preparation

Default Value: Robotic

Pattern Description: Robotic.

Programmatic Pattern: Robotic

RoboticInstrument

The robotic liquid handler used (along with integrated instrumentation for heating, mixing, and other functions) to manipulate the cell sample in order to extract and purify targeted cellular components.

Default Value: Automatic

Default Calculation: Automatically set to a robotic liquid handler compatible with the specified temperatures, mix types, and mix rates required by the extraction experiment, as well as the container and CellType of the sample. See the function MixDevices for integrated mixing instruments compatible with a given sample. See the function IncubationDevices for integrated heating instruments compatible with a given sample.

Pattern Description: An object of type or subtype Object[Instrument, LiquidHandler] or Model[Instrument, LiquidHandler]

Programmatic Pattern: ObjectP[{Object[Instrument, LiquidHandler], Model[Instrument, LiquidHandler]}] | Automatic

WorkCell

Indicates the work cell that this primitive will be run on if Preparation->Robotic.

Default Value: Automatic

Default Calculation: Automatically set to STAR if Preparation->Robotic.

Pattern Description: STAR, bioSTAR, or microbioSTAR or Null.

Programmatic Pattern: ((STAR | bioSTAR | microbioSTAR) | Automatic) | Null

Dissociation

Dissociate

Indicates if adherent cells in the input cell sample are dissociated from their container prior to cell lysis.

The set of parameters that define the temperature, safety, and other environmental conditions under which the supernatant isolated from the cell sample is stored upon completion of this protocol.

Default Value: Automatic

Default Calculation: Automatically set to Disposal if PreLysisPellet is True. Otherwise, automatically set to Null.

Pattern Description: Storage Object or Storage Type or Null.

Index Matches to: Sample

PreLysisSupernatantContainer

The container into which the supernatant is transferred after the cell sample is pelleted by centrifugation and stored for future use.

Default Value: Automatic

Default Calculation: Automatically set to a Model[Container] with sufficient capacity for the volume of the supernatant using the PreferredContainer function if PreLysisPellet is True. If PreLysisSupernatantStorageCondition is set to Disposal for multiple samples, the supernatants corresponding to these samples are automatically combined into a common container for efficient disposal. If PreLysisPellet is False, automatically set to Null.

Pattern Description: Container or Container with Index or Container with Well or Container with Well and Index or Null.

Index Matches to: Sample

PreLysisSupernatantLabel

A user defined word or phrase used to identify the supernatant which is transferred to a new container following pelleting of the cell sample by centrifugation, for use in downstream unit operations.

Default Value: Automatic

Pattern Description: A string or Null.

Programmatic Pattern: ((Null | _String) | Automatic) | Null

Index Matches to: Sample

SamplesInStorageCondition

Default Value: Null

Programmatic Pattern: (Null | (Alternatives[SampleStorageTypeP | Disposal])) | Null

Index Matches to: Sample

MeasureWeight

Default Value: False

Pattern Description: True or False or Null.

Programmatic Pattern: (Null | BooleanP) | Null

MeasureVolume

Default Value: False

Pattern Description: True or False or Null.

Programmatic Pattern: (Null | BooleanP) | Null

ImageSample

Default Value: False

Pattern Description: True or False or Null.

Programmatic Pattern: (Null | BooleanP) | Null

Nephelometry

Options

The options that specify the parameters of this unit operation.

Pattern: {_Rule..}

General

Sample

The samples that will be measured by the plate reader instrument.

Default Value: Null

Pattern Description: Container with Well Position or Sample or Container or Null.

Programmatic Pattern: ((ObjectP[{Object[Sample], Object[Container]}] | _String) | {Alternatives @@ Flatten[AllWells[NumberOfWells -> 384]] | LocationPositionP, ObjectP[{Object[Container]}] | _String}) | Null

Index Matches to: Sample

SampleLabel

A user defined word or phrase used to identify the samples for which nephelometry measurements are taken, for use in downstream unit operations.

Default Value: Automatic

Pattern Description: A string.

Programmatic Pattern: _String | Automatic

Index Matches to: Sample

SampleContainerLabel

A user defined word or phrase used to identify the containers of the samples for which nephelometry measurements are taken, for use in downstream unit operations.

Default Value: Automatic

Pattern Description: A string.

Programmatic Pattern: _String | Automatic

Index Matches to: Sample

Analyte

If the Method->Solublity, the compound whose concentration should be determined during this experiment. If Method->CellCount, the strain of cells whose concentration will be determined during this experiment, based on a previously measured standard curve, ReferenceCellCountCurve in the Model[Cell] composing the sample.

Default Value: Automatic

Default Calculation: Automatically set to the first value in the Analytes field of the input sample, or, if not populated, to the first analyte in the Composition field of the input sample.

Pattern Description: An object of type or subtype Model[Molecule], Model[Molecule, cDNA], Model[Molecule, Oligomer], Model[Molecule, Transcript], Model[Molecule, Protein], Model[Molecule, Protein, Antibody], Model[Molecule, Carbohydrate], Model[Molecule, Polymer], Model[Resin], Model[Resin, SolidPhaseSupport], Model[Lysate], Model[ProprietaryFormulation], Model[Virus], Model[Cell], Model[Cell, Mammalian], Model[Cell, Bacteria], Model[Cell, Yeast], Model[Tissue], Model[Material], or Model[Species]

Programmatic Pattern: ObjectP[List @@ IdentityModelTypeP] | Automatic

Index Matches to: Sample

BlankLabel

A user defined word or phrase used to identify the blank samples, for use in downstream unit operations.

Default Value: Automatic

Pattern Description: A string or Null.

Programmatic Pattern: ((Null | _String) | Automatic) | Null

Index Matches to: Sample

Instrument

The nephelometer used to measure scattered light from particles in solution in this experiment.

Default Value: Model[Instrument, Nephelometer, NEPHELOstar Plus]

Pattern Description: An object of type or subtype Model[Instrument, Nephelometer] or Object[Instrument, Nephelometer]

Programmatic Pattern: ObjectP[{Model[Instrument, Nephelometer], Object[Instrument, Nephelometer]}]

Method

The type of experiment nephelometric measurements are collected for. CellCount involves measuring the amount of scattered light from cells suspended in solution and using a Standard Curve that relates RNU (Relative Nephelometric Units) to Cells/mL in order to quantify the number of cells in solution. For Method -> Solubility, scattered light from suspended particles in solution will be measured, at a single time point or over a time period. Reagents can be injected into the samples to study their effects on solubility, and dilutions can be performed to determine the point of saturation.

Default Value: Automatic

Default Calculation: Automatically set to CellCount if samples are cells and have a StandardCurve. Otherwise, Method is set to Solubility.

Pattern Description: Solubility or CellCount.

Programmatic Pattern: NephelometryMethodTypeP | Automatic

PreparedPlate

Indicates if a prepared plate is provided for nephelometric measurement. The prepared plate contains the solutions that are ready for tubidity measurements in a plate reader. If 'PreparedPlate' is True, dilution options and Moat options must be Null.

Default Value: False

Pattern Description: True or False.

Programmatic Pattern: BooleanP

RetainCover

Indicates if the plate seal or lid on the assay container should not be taken off during measurement to decrease evaporation. When this option is set to True, injections cannot be performed as it's not possible to inject samples through the cover. The cover must be clear, as the laser passes from the top of the plate through to the bottom of the plate.

Default Value: False

Pattern Description: True or False.

Programmatic Pattern: BooleanP

Preparation

Default Value: Automatic

Pattern Description: Manual or Robotic.

Programmatic Pattern: PreparationMethodP | Automatic

WorkCell

Indicates the work cell that this primitive will be run on if Preparation->Robotic.

Default Value: Automatic

Default Calculation: Automatically set to STAR if Preparation->Robotic.

Pattern Description: STAR, bioSTAR, or microbioSTAR or Null.

Programmatic Pattern: ((STAR | bioSTAR | microbioSTAR) | Automatic) | Null

NumberOfReplicates

The number of times to repeat nephelometry reading on each provided sample. If Aliquot -> True, this also indicates the number of times each provided sample will be aliquoted.

Default Value: Automatic

Pattern Description: Greater than or equal to 2 in increments of 1 or Null.

Programmatic Pattern: (GreaterEqualP[2, 1] | Automatic) | Null

Quantification

QuantifyCellCount

Indicates if the number of cells in the sample is automatically converted from the measured RNU (Relative Nephelometric Unit) via a StandardCurve in the Model[Cell].

Default Value: Automatic

Default Calculation: Automatically set to True if Method->CellCount, and set to False if Method->Solubility.

Pattern Description: True or False.

Programmatic Pattern: BooleanP | Automatic

Index Matches to: Sample

InputConcentration

The initial assumed concentrations of the experiment samples.

The non-default conditions under which any injection samples used by this experiment are stored after the protocol is completed.

Default Value: Null

Programmatic Pattern: (SampleStorageTypeP | Disposal) | Null

SecondaryInjectionSampleStorageCondition

The non-default conditions under which any injection samples used by this experiment are stored after the protocol is completed.

Default Value: Null

Programmatic Pattern: (SampleStorageTypeP | Disposal) | Null

Data Processing

Blank

The source used to generate a blank sample whose scattered light is subtracted as background from the scattered light readings of the input sample.

Default Value: Automatic

Default Calculation: Automatically set to Null if BlankMeasurement is False. If BlankMeasurement->True, Blank is set to the Solvent field for each sample. If the Solvent field is not informed, Blank is set to Model[Sample,"Milli-Q water"].

Pattern Description: An object of type or subtype Model[Sample] or Object[Sample] or a prepared sample or Null.

Programmatic Pattern: ((Null | (ObjectP[{Model[Sample], Object[Sample]}] | _String)) | Automatic) | Null

Index Matches to: Sample

BlankVolume

The volume of the blank that should be transferred out and used for blank measurements. Set BlankVolume to Null to indicate blanks should be read inside their current containers.

Default Value: Automatic

Default Calculation: If BlankMeasurement is True, automatically set to match the maximum of the volume of each sample or the recommended fill volume of the container. Otherwise set to Null.

Pattern Description: Greater than or equal to 1 microliter and less than or equal to 4000 microliters or Null.

Programmatic Pattern: ((Null | RangeP[1*Microliter, 4000*Microliter]) | Automatic) | Null

Index Matches to: Sample

BlankMeasurement

Indicates if blank samples are prepared to account for the background signal when measuring scattered light from the assay samples.

Default Value: True

The rotational speed or the force that will be applied to the samples by centrifugation prior to starting the experiment.

Default Value: Automatic

Pattern Description: Greater than 0 revolutions per minute or greater than 0 standard accelerations due to gravity on the surface of the earth or Null.

Programmatic Pattern: ((Null | (GreaterP[0*RPM] | GreaterP[0*GravitationalAcceleration])) | Automatic) | Null

Index Matches to: Sample

CentrifugeTime

The amount of time for which the SamplesIn should be centrifuged prior to starting the experiment.

Default Value: Automatic

Pattern Description: Greater than 0 minutes or Null.

Programmatic Pattern: ((Null | GreaterP[0*Minute]) | Automatic) | Null

Index Matches to: Sample

CentrifugeTemperature

The temperature at which the centrifuge chamber should be held while the samples are being centrifuged prior to starting the experiment.

Default Value: Automatic

Pattern Description: Ambient or greater than or equal to -10 degrees Celsius and less than or equal to 40 degrees Celsius or Null.

Programmatic Pattern: ((Null | (Ambient | RangeP[-10*Celsius, 40*Celsius])) | Automatic) | Null

Index Matches to: Sample

The desired final concentration of analyte in the AliquotSamples after dilution of aliquots of SamplesIn with the ConcentratedBuffer and BufferDiluent which should be used in lieu of the SamplesIn for the experiment.

Default Value: Automatic

Default Calculation: Automatically calculated based on aliquot and buffer volumes.

Pattern Description: Greater than 0 molar or greater than 0 grams per liter or Null.

Programmatic Pattern: ((Null | (GreaterP[0*Molar] | GreaterP[0*(Gram/Liter)])) | Automatic) | Null

Index Matches to: Sample

TargetConcentrationAnalyte

The substance whose final concentration is attained with the TargetConcentration option.

Default Value: Automatic

Default Calculation: Automatically set to the first value in the Analytes field of the input sample, or, if not populated, to the first analyte in the Composition field of the input sample, or if none exist, the first identity model of any kind in the Composition field.

Programmatic Pattern: ((Null | ObjectP[IdentityModelTypes]) | Automatic) | Null

Index Matches to: Sample

AssayVolume

The desired total volume of the aliquoted sample plus dilution buffer.

Default Value: Automatic

Default Calculation: Automatically determined based on Volume and TargetConcentration option values.

Pattern Description: Greater than or equal to 1 microliter and less than or equal to 20 liters or Null.

Programmatic Pattern: ((Null | RangeP[1*Microliter, 20*Liter]) | Automatic) | Null

Index Matches to: Sample

The non-default conditions under which any aliquot samples generated by this experiment should be stored after the protocol is completed.

Default Value: Automatic

Programmatic Pattern: ((Null | (SampleStorageTypeP | Disposal)) | Automatic) | Null

Index Matches to: Sample

DestinationWell

The desired position in the corresponding AliquotContainer in which the aliquot samples will be placed.

Default Value: Automatic

Default Calculation: Automatically resolves to A1 in containers with only one position. For plates, fills wells in the order provided by the function AllWells.

Pattern Description: Any well from A1 to H12 or list of one or more any well from A1 to H12 or any well from A1 to H12 entries or Null.

Programmatic Pattern: ((WellPositionP | {((Automatic | Null) | WellPositionP)..}) | Automatic) | Null

AliquotContainer

The desired type of container that should be used to prepare and house the aliquot samples, with indices indicating grouping of samples in the same plates, if desired. This option will resolve to be the length of the SamplesIn * NumberOfReplicates.

Default Value: Automatic

Default Calculation: Automatically set as the PreferredContainer for the AssayVolume of the sample. For plates, attempts to fill all wells of a single plate with the same model before aliquoting into the next.

AliquotPreparation

Indicates the desired scale at which liquid handling used to generate aliquots will occur.

Default Value: Automatic

Default Calculation: Automatic resolution will occur based on manipulation volumes and container types.

Pattern Description: Manual or Robotic or Null.

Programmatic Pattern: (PreparationMethodP | Automatic) | Null

ConsolidateAliquots

Indicates if identical aliquots should be prepared in the same container/position.

Default Value: Automatic

Pattern Description: True or False or Null.

Programmatic Pattern: (BooleanP | Automatic) | Null

Post Experiment

SamplesInStorageCondition

Default Value: Null

Programmatic Pattern: (Null | (Alternatives[SampleStorageTypeP | Disposal])) | Null

Index Matches to: Sample

MeasureWeight

Default Value: Automatic

Pattern Description: True or False or Null.

Programmatic Pattern: (BooleanP | Automatic) | Null

MeasureVolume

Default Value: Automatic

Pattern Description: True or False or Null.

Programmatic Pattern: (BooleanP | Automatic) | Null

ImageSample

Default Value: Automatic

Pattern Description: True or False or Null.

Programmatic Pattern: (BooleanP | Automatic) | Null

Optics

BeamAperture

The diameter of the opening allowing the source laser light to pass through to the sample. A larger BeamAperture allows more light to pass through to the sample, leading to a higher signal. A setting of 1.5 millimeters is recommended for all 384 and 96 well plates, and 2.5-3.5 millimeters for 48 or less well plates. For non-homogenous solutions, a higher BeamAperture is recommended, and for samples with a large meniscus effect, a smaller BeamAperture is recommended.

Default Value: 1.5 millimeters

Pattern Description: Greater than or equal to 1.5 millimeters and less than or equal to 3.5 millimeters.

Programmatic Pattern: RangeP[1.5*Millimeter, 3.5*Millimeter]

BeamIntensity

The percentage of the total amount of the laser source light passed through to reach the sample. For Solubility experiments, 80% is recommended, and for experiments with highly concentrated or highly turbid samples, such as those involving cells, a BeamIntensity of 10% is recommended.

Default Value: Automatic

Default Calculation: Automatically set to 80% if Method->Solubility, and 10% if Method->CellCount.

Pattern Description: Greater than or equal to 0 percent and less than or equal to 100 percent.

Programmatic Pattern: RangeP[0*Percent, 100*Percent] | Automatic

Measurement

Temperature

The temperature at which the plate reader chamber is held during the course of the reading.

Default Value: Automatic

Default Calculation: Automatically set to Ambient if Method->Solubility or the average of the IncubationTemperatures of the Model[Cell] Analytes, or 37 Celsius if that field is not informed if Method->CellCount.

Pattern Description: Ambient or greater than or equal to 25 degrees Celsius and less than or equal to 65 degrees Celsius.

Programmatic Pattern: (RangeP[$AmbientTemperature, 65*Celsius] | Ambient) | Automatic

EquilibrationTime

The length of time for which the assay plates equilibrate at the requested temperature in the plate reader before being read.

Default Value: Automatic

Default Calculation: Automatically set to 0 second when Temperature is set to Ambient, or 5 minutes when Temperature is above Ambient.

Pattern Description: Greater than or equal to 0 seconds and less than or equal to 72 hours.

Programmatic Pattern: RangeP[0*Second, $MaxExperimentTime] | Automatic

TargetCarbonDioxideLevel

The target amount of carbon dioxide in the atmosphere in the plate reader chamber.

Default Value: Automatic

Default Calculation: Automatically set to 5% for mammalian cells, and Null otherwise.

Pattern Description: Greater than or equal to 0.1 percent and less than or equal to 20 percent or Null.

Programmatic Pattern: (RangeP[0.1*Percent, 20*Percent] | Automatic) | Null

TargetOxygenLevel

The target amount of oxygen in the atmosphere in the plate reader chamber. If specified, nitrogen gas is pumped into the chamber to force oxygen in ambient air out of the chamber until the desired level is reached.

Default Value: Null

Pattern Description: Greater than or equal to 0.1 percent and less than or equal to 20 percent or Null.

Programmatic Pattern: RangeP[0.1*Percent, 20*Percent] | Null

Indicates the buffer which should be used to fill each moat well.

Default Value: Automatic

Default Calculation: Automatically set to Model[Sample,"Milli-Q water"] if any other moat options are specified.

Pattern Description: An object of type or subtype Object[Sample] or Model[Sample] or a prepared sample or Null.

Programmatic Pattern: ((ObjectP[{Object[Sample], Model[Sample]}] | _String) | Automatic) | Null

ReadDirection

Indicate the plate path the instrument will follow as it measures scattered light in each well, for instance reading all wells in a row before continuing on to the next row (Row).

Default Value: Row

Pattern Description: Row, Column, SerpentineRow, or SerpentineColumn.

Programmatic Pattern: ReadDirectionP

SettlingTime

The time between the movement of the plate and the beginning of the measurement. It reduces potential vibration of the samples in plate due to the stop and go motion of the plate carrier.

Default Value: 200 milliseconds

Pattern Description: Greater than or equal to 0 seconds and less than or equal to 1 second.

Programmatic Pattern: RangeP[0*Second, 1*Second]

ReadStartTime

The time at which nephelometry measurement readings will begin, after the plate is in position and the SettlingTime has passed. If a pause is desired before readings begin, set this time to higher than the SettlingTime. For kinetic experiments, the ReadStartTime is the time at which the first cycle begins.

Default Value: 0 seconds

Pattern Description: Greater than or equal to 0 seconds and less than or equal to 1200 seconds.

Programmatic Pattern: RangeP[0*Second, 1200*Second]

IntegrationTime

The amount of time that scattered light is measured. Increasing the IntegrationTime leads to higher measurements.

Default Value: Automatic

Default Calculation: Automatically set to 1 second if no SamplingPattern is specified, or if SamplingPattern->Matrix. If SamplingPattern->Ring or Spiral, IntegrationTime is set based on the SamplingDistance.

Pattern Description: Greater than or equal to 20 milliseconds and less than or equal to 10 seconds.

Programmatic Pattern: RangeP[20*Millisecond, 10*Second] | Automatic

Sample Handling

AtmosphereEquilibrationTime

The length of time for which the samples equilibrate at the requested oxygen and carbon dioxide level before being read.

Default Value: Automatic

Default Calculation: Automatically set to 5 Minute if TargetCarbonDioxideLevel or TargetOxygenLevel is specified. Otherwise, set to Null.

Pattern Description: Greater than or equal to 0 seconds and less than or equal to 24 hours or Null.

Programmatic Pattern: (RangeP[0*Second, 24*Hour] | Automatic) | Null

Programmatic Pattern: (RangeP[2, 30] | Automatic) | Null

NephelometryKinetics

Options

The options that specify the parameters of this unit operation.

Pattern: {_Rule..}

General

Sample

The samples that will be measured by the plate reader instrument.

Default Value: Null

Pattern Description: Container with Well Position or Sample or Container or Null.

Index Matches to: Sample

SampleLabel

A user defined word or phrase used to identify the samples for which nephelometry measurements are taken, for use in downstream unit operations.

Default Value: Automatic

Pattern Description: A string.

Programmatic Pattern: _String | Automatic

Index Matches to: Sample

SampleContainerLabel

A user defined word or phrase used to identify the containers of the samples for which nephelometry measurements are taken, for use in downstream unit operations.

Default Value: Automatic

Pattern Description: A string.

Programmatic Pattern: _String | Automatic

Index Matches to: Sample

Analyte

Default Value: Automatic

Default Calculation: Automatically set to the first value in the Analytes field of the input sample, or, if not populated, to the first analyte in the Composition field of the input sample.

Programmatic Pattern: ObjectP[List @@ IdentityModelTypeP] | Automatic

Index Matches to: Sample

BlankLabel

A user defined word or phrase used to identify the blank samples, for use in downstream unit operations.

Default Value: Automatic

Pattern Description: A string or Null.

Programmatic Pattern: ((Null | _String) | Automatic) | Null

Index Matches to: Sample

Instrument

The nephelometer used to measure scattered light from particles in solution in this experiment.

Default Value: Model[Instrument, Nephelometer, NEPHELOstar Plus]

Pattern Description: An object of type or subtype Model[Instrument, Nephelometer] or Object[Instrument, Nephelometer]

Programmatic Pattern: ObjectP[{Model[Instrument, Nephelometer], Object[Instrument, Nephelometer]}]

Method

Default Value: Automatic

Default Calculation: Automatically set to CellCount if samples are cells and have a StandardCurve. Otherwise, Method is set to Solubility.

Pattern Description: Solubility or CellCount.

Programmatic Pattern: NephelometryMethodTypeP | Automatic

PreparedPlate

Default Value: False

Pattern Description: True or False.

Programmatic Pattern: BooleanP

RetainCover

Default Value: False

Pattern Description: True or False.

Programmatic Pattern: BooleanP

Preparation

Default Value: Automatic

Pattern Description: Manual or Robotic.

Programmatic Pattern: PreparationMethodP | Automatic

WorkCell

Indicates the work cell that this primitive will be run on if Preparation->Robotic.

Default Value: Automatic

Default Calculation: Automatically set to STAR if Preparation->Robotic.

Pattern Description: STAR, bioSTAR, or microbioSTAR or Null.

Programmatic Pattern: ((STAR | bioSTAR | microbioSTAR) | Automatic) | Null

Default Value: Null

Pattern Description: An object of type or subtype Object[Sample] or Model[Sample] or a prepared sample or Null.

Programmatic Pattern: (Null | (ObjectP[{Object[Sample], Model[Sample]}] | _String)) | Null

Index Matches to: Sample

SecondaryInjectionVolume

The amount of the secondary sample injected in the second round of injections.

The speed at which to transfer injection samples into the assay plate in the second round of injections.

Default Value: Automatic

Default Calculation: Defaults to 300 Microliter/Second if secondary injections are specified.

Programmatic Pattern: (BMGFlowRateP | Automatic) | Null

PrimaryInjectionSampleStorageCondition

The non-default conditions under which any injection samples used by this experiment are stored after the protocol is completed.

Default Value: Null

Programmatic Pattern: (SampleStorageTypeP | Disposal) | Null

SecondaryInjectionSampleStorageCondition

The non-default conditions under which any injection samples used by this experiment are stored after the protocol is completed.

Default Value: Null

Programmatic Pattern: (SampleStorageTypeP | Disposal) | Null

Quantification

QuantifyCellCount

Indicates if the number of cells in the sample is automatically converted from the measured RNU (Relative Nephelometric Unit) via a StandardCurve in the Model[Cell].

Default Value: Automatic

Default Calculation: Automatically set to True if Method->CellCount, and set to False if Method->Solubility.

Pattern Description: True or False.

Programmatic Pattern: BooleanP | Automatic

Index Matches to: Sample

InputConcentration

The initial assumed concentrations of the experiment samples.

Default Value: Automatic

Default Calculation: Automatically determined from the concentration of the analyte in the original source sample.

Pattern Description: Greater than 0 molar or greater than 0 grams per liter or Null.

Programmatic Pattern: ((Null | (GreaterP[0*Molar] | GreaterP[0*(Gram/Liter)])) | Automatic) | Null

Index Matches to: Sample

Sample Preparation

DilutionCurve

Default Value: Automatic

Default Calculation: This is automatically set Null if Diluent is set to Null or a Serial Dilution Curve is specified.

Pattern Description: Fixed Dilution Factor or Fixed Dilution Volume or Null.

Programmatic Pattern: ((Null | ({{RangeP[0*Microliter, 300*Microliter], RangeP[0*Microliter, 300*Microliter]}..} | {{RangeP[0*Microliter, 300*Microliter], RangeP[0, 1]}..})) | Automatic) | Null

Index Matches to: Sample

SerialDilutionCurve

Default Value: Automatic

Pattern Description: Serial Dilution Factor or Serial Dilution Volumes or Null.

Index Matches to: Sample

Indicates if blank samples are prepared to account for the background signal when measuring scattered light from the assay samples.

Default Value: True

Pattern Description: True or False.

Programmatic Pattern: BooleanP

Preparatory Incubation

Incubate

Default Value: Automatic

Default Calculation: Resolves to True if any of the corresponding Incubation options are set. Otherwise, resolves to False.

Pattern Description: True or False.

Programmatic Pattern: BooleanP | Automatic

Index Matches to: Sample

IncubationTemperature

Temperature at which the SamplesIn should be incubated for the duration of the IncubationTime prior to starting the experiment.

Default Value: Automatic

Pattern Description: Ambient or greater than or equal to -20 degrees Celsius and less than or equal to 500 degrees Celsius or Null.

Programmatic Pattern: ((Null | (Ambient | RangeP[$MinIncubationTemperature, $MaxIncubationTemperature])) | Automatic) | Null

Index Matches to: Sample

Default Value: Automatic

Default Calculation: Automatically resolves to True if MaxIncubationTime or MaxNumberOfMixes is set.

Pattern Description: True or False or Null.

Programmatic Pattern: ((Null | BooleanP) | Automatic) | Null

Index Matches to: Sample

MaxIncubationTime

Default Value: Automatic

Default Calculation: Automatically resolves based on MixType, MixUntilDissolved, and the container of the given sample.

Pattern Description: Greater than or equal to 1 minute and less than or equal to 72 hours or Null.

Programmatic Pattern: ((Null | RangeP[1*Minute, $MaxExperimentTime]) | Automatic) | Null

Index Matches to: Sample

IncubationInstrument

The instrument used to perform the Mix and/or Incubation, prior to starting the experiment.

Default Value: Automatic

Default Calculation: Automatically resolves based on the options Mix, Temperature, MixType and container of the sample.

Programmatic Pattern: ((Null | ObjectP[Join[MixInstrumentModels, MixInstrumentObjects]]) | Automatic) | Null

Index Matches to: Sample

AnnealingTime

Minimum duration for which the SamplesIn should remain in the incubator allowing the system to settle to room temperature after the IncubationTime has passed but prior to starting the experiment.

Default Value: Automatic

Pattern Description: Greater than or equal to 0 minutes and less than or equal to 72 hours or Null.

Programmatic Pattern: ((Null | RangeP[0*Minute, $MaxExperimentTime]) | Automatic) | Null

Index Matches to: Sample

The instrument that should be used to perform the filtration.

Default Value: Automatic

Default Calculation: Will automatically resolved to an instrument appropriate for the filtration type.

Index Matches to: Sample

Filter

The filter that should be used to remove impurities from the SamplesIn prior to starting the experiment.

Default Value: Automatic

Default Calculation: Will automatically resolve to a filter appropriate for the filtration type and instrument.

Pattern Description: An object of type or subtype Model[Container, Plate, Filter], Model[Container, Vessel, Filter], or Model[Item, Filter] or Null.

Programmatic Pattern: ((Null | ObjectP[{Model[Container, Plate, Filter], Model[Container, Vessel, Filter], Model[Item, Filter]}]) | Automatic) | Null

Index Matches to: Sample

FilterMaterial

The membrane material of the filter that should be used to remove impurities from the SamplesIn prior to starting the experiment.

Default Value: Automatic

Default Calculation: Resolves to an appropriate filter material for the given sample is Filtration is set to True.

Programmatic Pattern: ((Null | FilterMembraneMaterialP) | Automatic) | Null

Index Matches to: Sample

PrefilterMaterial

The material from which the prefilter filtration membrane should be made of to remove impurities from the SamplesIn prior to starting the experiment.

Default Value: Automatic

Default Calculation: By default, no prefiltration is performed on samples, even when Filter->True.

Programmatic Pattern: ((Null | FilterMembraneMaterialP) | Automatic) | Null

Index Matches to: Sample

FilterPoreSize

The pore size of the filter that should be used when removing impurities from the SamplesIn prior to starting the experiment.

Default Value: Automatic

Default Calculation: Resolves to an appropriate filter pore size for the given sample is Filtration is set to True.

Programmatic Pattern: ((Null | FilterSizeP) | Automatic) | Null

Index Matches to: Sample

The desired container filtered samples should be produced in or transferred into by the end of filtration, with indices indicating grouping of samples in the same plates, if desired.

Default Value: Automatic

Default Calculation: Automatically set as the PreferredContainer for the Volume of the sample. For plates, attempts to fill all wells of a single plate with the same model before using another one.

Pattern Description: An object of type or subtype Model[Container] or Object[Container] or a prepared sample or {Index, Container} or Null.

Index Matches to: Sample

FilterAliquotDestinationWell

The desired position in the corresponding AliquotContainer in which the aliquot samples will be placed.

Default Value: Automatic

Default Calculation: Automatically resolves to A1 in containers with only one position. For plates, fills wells in the order provided by the function AllWells.

Pattern Description: Any well from A1 to H12 or Null.

Programmatic Pattern: ((Null | WellPositionP) | Automatic) | Null

Index Matches to: Sample

Default Value: Automatic

Pattern Description: All or Count or Count or Mass or Volume or Null.

Index Matches to: Sample

TargetConcentration

Default Value: Automatic

Default Calculation: Automatically calculated based on aliquot and buffer volumes.

Pattern Description: Greater than 0 molar or greater than 0 grams per liter or Null.

Programmatic Pattern: ((Null | (GreaterP[0*Molar] | GreaterP[0*(Gram/Liter)])) | Automatic) | Null

Index Matches to: Sample

TargetConcentrationAnalyte

The substance whose final concentration is attained with the TargetConcentration option.

Default Value: Automatic

Programmatic Pattern: ((Null | ObjectP[IdentityModelTypes]) | Automatic) | Null

Index Matches to: Sample

AssayVolume

The desired total volume of the aliquoted sample plus dilution buffer.

Default Value: Automatic

Default Calculation: Automatically determined based on Volume and TargetConcentration option values.

Pattern Description: Greater than or equal to 1 microliter and less than or equal to 20 liters or Null.

Programmatic Pattern: ((Null | RangeP[1*Microliter, 20*Liter]) | Automatic) | Null

Index Matches to: Sample

The buffer that should be added to any aliquots requiring dilution, where the volume of this buffer added is the difference between the AliquotAmount and the total AssayVolume.

Default Value: Automatic

Default Calculation: Automatically resolves to Model[Sample, "Milli-Q water"] if ConcentratedBuffer is not specified; otherwise, resolves to Null.

Pattern Description: An object of type or subtype Model[Sample] or Object[Sample] or a prepared sample or Null.

Programmatic Pattern: ((Null | (ObjectP[{Model[Sample], Object[Sample]}] | _String)) | Automatic) | Null

Index Matches to: Sample

AliquotSampleStorageCondition

The non-default conditions under which any aliquot samples generated by this experiment should be stored after the protocol is completed.

Default Value: Automatic

Programmatic Pattern: ((Null | (SampleStorageTypeP | Disposal)) | Automatic) | Null

Index Matches to: Sample

DestinationWell

The desired position in the corresponding AliquotContainer in which the aliquot samples will be placed.

Default Value: Automatic

Default Calculation: Automatically resolves to A1 in containers with only one position. For plates, fills wells in the order provided by the function AllWells.

Pattern Description: Any well from A1 to H12 or list of one or more any well from A1 to H12 or any well from A1 to H12 entries or Null.

Programmatic Pattern: ((WellPositionP | {((Automatic | Null) | WellPositionP)..}) | Automatic) | Null

AliquotContainer

Default Value: Automatic

AliquotPreparation

Indicates the desired scale at which liquid handling used to generate aliquots will occur.

Default Value: Automatic

Default Calculation: Automatic resolution will occur based on manipulation volumes and container types.

Pattern Description: Manual or Robotic or Null.

Programmatic Pattern: (PreparationMethodP | Automatic) | Null

ConsolidateAliquots

Indicates if identical aliquots should be prepared in the same container/position.

Default Value: Automatic

Pattern Description: True or False or Null.

Programmatic Pattern: (BooleanP | Automatic) | Null

Post Experiment

SamplesInStorageCondition

Default Value: Null

Programmatic Pattern: (Null | (Alternatives[SampleStorageTypeP | Disposal])) | Null

Index Matches to: Sample

MeasureWeight

Default Value: Automatic

Pattern Description: True or False or Null.

Programmatic Pattern: (BooleanP | Automatic) | Null

MeasureVolume

Default Value: Automatic

Pattern Description: True or False or Null.

Programmatic Pattern: (BooleanP | Automatic) | Null

ImageSample

Pattern Description: Ambient or greater than or equal to 25 degrees Celsius and less than or equal to 65 degrees Celsius.

Programmatic Pattern: (RangeP[$AmbientTemperature, 65*Celsius] | Ambient) | Automatic

EquilibrationTime

The length of time for which the assay plates equilibrate at the requested temperature in the plate reader before being read.

Default Value: Automatic

Default Calculation: Automatically set to 0 second when Temperature is set to Ambient, or 5 minutes when Temperature is above Ambient.

Pattern Description: Greater than or equal to 0 seconds and less than or equal to 72 hours.

Programmatic Pattern: RangeP[0*Second, $MaxExperimentTime] | Automatic

TargetCarbonDioxideLevel

The target amount of carbon dioxide in the atmosphere in the plate reader chamber.

Default Value: Automatic

Default Calculation: Automatically set to 5% for mammalian cells, and Null otherwise.

Pattern Description: Greater than or equal to 0.1 percent and less than or equal to 20 percent or Null.

Programmatic Pattern: (RangeP[0.1*Percent, 20*Percent] | Automatic) | Null

TargetOxygenLevel

Default Value: Null

Pattern Description: Greater than or equal to 0.1 percent and less than or equal to 20 percent or Null.

Programmatic Pattern: RangeP[0.1*Percent, 20*Percent] | Null

Indicates the buffer which should be used to fill each moat well.

Default Value: Automatic

Default Calculation: Automatically set to Model[Sample,"Milli-Q water"] if any other moat options are specified.

Pattern Description: An object of type or subtype Object[Sample] or Model[Sample] or a prepared sample or Null.

Programmatic Pattern: ((ObjectP[{Object[Sample], Model[Sample]}] | _String) | Automatic) | Null

ReadDirection

Indicate the plate path the instrument will follow as it measures scattered light in each well, for instance reading all wells in a row before continuing on to the next row (Row).

Default Value: Row

Pattern Description: Row, Column, SerpentineRow, or SerpentineColumn.

Programmatic Pattern: ReadDirectionP

SettlingTime

The time between the movement of the plate and the beginning of the measurement. It reduces potential vibration of the samples in plate due to the stop and go motion of the plate carrier.

Default Value: 200 milliseconds

Pattern Description: Greater than or equal to 0 seconds and less than or equal to 1 second.

Programmatic Pattern: RangeP[0*Second, 1*Second]

ReadStartTime

Default Value: 0 seconds

Pattern Description: Greater than or equal to 0 seconds and less than or equal to 1200 seconds.

Programmatic Pattern: RangeP[0*Second, 1200*Second]

IntegrationTime

The amount of time that scattered light is measured. Increasing the IntegrationTime leads to higher measurements.

Default Value: Automatic

Pattern Description: Greater than or equal to 20 milliseconds and less than or equal to 10 seconds.

Programmatic Pattern: RangeP[20*Millisecond, 10*Second] | Automatic

Cycling

KineticWindowDurations

The length of time to study different areas of the kinetic curve. Separate NumberOfCycles and CycleTime can be set for each window, in order to increase the density of measurements for areas of particular interest. All indicates that the same settings will be used for the entire experiment RunTime. For example, if you would like to measure the plate for 1 hour every 6 minutes, then every minute for 15 minutes, set KineticWindowDurations to {1 Hour, 15 Minute}, NumberOfCycles to {11, 15}, and CycleTime to {6 Minute, 1 Minute}.

Default Value: All

Pattern Description: All or list of one or more greater than or equal to 10 seconds and less than or equal to 72 hours entries.

Programmatic Pattern: {RangeP[10*Second, $MaxExperimentTime]..} | All

NumberOfCycles

For the length of each kinetic window duration, the number of times all wells in the plate are read.

Default Value: Automatic

Default Calculation: Defaults to read every minute if RunTime is less than 1 hour, or read every 5 minutes if RunTime is longer than 1 hour, or to the number of cycles that will fit into the KineticWindowDuration if CycleTimes are specified.

Pattern Description: Greater than or equal to 1 and less than or equal to 1000 in increments of 1.

Programmatic Pattern: RangeP[1, 1000, 1] | Automatic

Index Matches to: KineticWindowDurations

CycleTime

For each kinetic window duration, the duration of time between each plate measurement. These timings are approximate, as the plate reader must account for the time to move the plate into position for reading, as well as any shaking time or time to inject samples if applicable.

Default Value: Automatic

Default Calculation: Defaults to every 1 minute for each KineticWindowDurations under 1 hour, or every 5 minutes for KineticWindowDurations longer than 1 hour, or to the cycle time that will fit into the KineticWindowDurations if NumberOfCycles are specified.

Pattern Description: Greater than or equal to 10 seconds and less than or equal to 10000 seconds.

Programmatic Pattern: RangeP[10*Second, 10000*Second] | Automatic

Index Matches to: KineticWindowDurations

Sampling

SamplingPattern

Default Value: Automatic

Pattern Description: Ring, Spiral, or Center or Null.

Programmatic Pattern: ((Ring | Spiral | Center) | Automatic) | Null

SamplingDistance

Indicates the outer limit of the SamplingPattern.

Default Value: Automatic

Default Calculation: Automatically set to 80% of the well diameter of the assay container if SamplingPattern is not Null.

Pattern Description: Greater than or equal to 1 millimeter and less than or equal to 6 millimeters or Null.

Programmatic Pattern: (RangeP[1*Millimeter, 6*Millimeter] | Automatic) | Null

Optics

BeamAperture

Default Value: 1.5 millimeters

Pattern Description: Greater than or equal to 1.5 millimeters and less than or equal to 3.5 millimeters.

Programmatic Pattern: RangeP[1.5*Millimeter, 3.5*Millimeter]

BeamIntensity

Default Value: Automatic

Default Calculation: Automatically set to 80% if Method->Solubility, and 10% if Method->CellCount.

Pattern Description: Greater than or equal to 0 percent and less than or equal to 100 percent.

Programmatic Pattern: RangeP[0*Percent, 100*Percent] | Automatic

Sample Handling

AtmosphereEquilibrationTime

The length of time for which the samples equilibrate at the requested oxygen and carbon dioxide level before being read.

Default Value: Automatic

Default Calculation: Automatically set to 5 Minute if TargetCarbonDioxideLevel or TargetOxygenLevel is specified. Otherwise, set to Null.

Pattern Description: Greater than or equal to 0 seconds and less than or equal to 24 hours or Null.

Programmatic Pattern: (RangeP[0*Second, 24*Hour] | Automatic) | Null

PCR

Options

The options that specify the parameters of this unit operation.

Pattern: {_Rule..}

General

Sample

The sample containing the nucleic acid template for amplification.

Default Value: Null

Pattern Description: Container with Well Position or Sample or Container or Null.

Index Matches to: Sample

PrimerPair

The sample containing pair(s) of oligomer strands designed to bind to the template and serve as anchors for the polymerase.

Default Value: Null

Pattern Description: List of one or more {Forward Primer, Reverse Primer} entries or {{Null, Null}} or Null.

Programmatic Pattern: ({{(ObjectP[{Object[Sample], Object[Container]}] | _String) | {Alternatives @@ Flatten[AllWells[NumberOfWells -> 384]] | LocationPositionP, ObjectP[{Object[Container]}] | _String}, (ObjectP[{Object[Sample], Object[Container]}] | _String) | {Alternatives @@ Flatten[AllWells[NumberOfWells -> 384]] | LocationPositionP, ObjectP[{Object[Container]}] | _String}}..} | {{Null, Null}}) | Null

Index Matches to: Sample

SampleLabel

A user defined word or phrase used to identify the samples containing nucleic acid templates from which the target sequences will be amplified, for use in downstream unit operations.

Default Value: Automatic

Pattern Description: A string.

Programmatic Pattern: _String | Automatic

Index Matches to: Sample

SampleContainerLabel

A user defined word or phrase used to identify the container of the sample containing nucleic acid templates from which the target sequences will be amplified, for use in downstream unit operations.

Default Value: Automatic

Pattern Description: A string.

Programmatic Pattern: _String | Automatic

Index Matches to: Sample

Instrument

The instrument for running the polymerase chain reaction (PCR) experiment.

Default Value: Model[Instrument, Thermocycler, Automated Thermal Cycler]

Pattern Description: An object of type or subtype Model[Instrument, Thermocycler] or Object[Instrument, Thermocycler]

Programmatic Pattern: ObjectP[{Model[Instrument, Thermocycler], Object[Instrument, Thermocycler]}]

LidTemperature

The temperature of the instrument's plate lid throughout the reaction. The lid is heated to prevent water from condensing on the plate seal.

Default Value: 99 degrees Celsius

Pattern Description: Greater than or equal to 30 degrees Celsius and less than or equal to 105 degrees Celsius.

Programmatic Pattern: RangeP[30*Celsius, 105*Celsius]

Preparation

Default Value: Automatic

Pattern Description: Manual or Robotic.

Programmatic Pattern: PreparationMethodP | Automatic

A user defined word or phrase used to identify the container of the sample containing pair(s) of oligomer strands designed to bind to the template and serve as anchors for the polymerase, for use in downstream unit operations.

Default Value: Automatic

Pattern Description: List of one or more {Forward Primer Container, Reverse Primer Container} entries or {{Null, Null}}

Programmatic Pattern: ({{_String, _String}..} | {{Null, Null}}) | Automatic

Index Matches to: Sample

ForwardPrimerVolume

For each sample, the forward primer volume(s) to add to the reaction.

Default Value: Automatic

Default Calculation: Automatically set to 1 microliter for each forward primer specified, or Null otherwise.

Pattern Description: Multiple forward primers or Single forward primer or Null.

Programmatic Pattern: ((Null | (RangeP[0*Microliter, 100*Microliter] | {RangeP[0*Microliter, 100*Microliter]..})) | Automatic) | Null

Index Matches to: Sample

ReversePrimerVolume

For each sample, the reverse primer volume(s) to add to the reaction.

Default Value: Automatic

Default Calculation: Automatically set to match ForwardPrimerVolume.

Pattern Description: Multiple forward primers or Single forward primer or Null.

Programmatic Pattern: ((Null | (RangeP[0*Microliter, 100*Microliter] | {RangeP[0*Microliter, 100*Microliter]..})) | Automatic) | Null

Index Matches to: Sample

BufferVolume

For each sample, the buffer volume to add to bring each reaction to ReactionVolume.

Default Value: Automatic

Default Calculation: Automatically set according to the equation BufferVolume=ReactionVolume-(SampleVolume+MasterMixVolume+ForwardPrimerVolume+ReversePrimerVolume) if Buffer is not set to Null, or Null otherwise.

Pattern Description: Multiple forward primers or Single forward primer or Null.

Programmatic Pattern: ((Null | (RangeP[0*Microliter, 100*Microliter] | {RangeP[0*Microliter, 100*Microliter]..})) | Automatic) | Null

Index Matches to: Sample

SampleOutLabel

A user defined word or phrase used to identify the output samples that contains amplified sequence(s), for use in downstream unit operations.

Default Value: Automatic

Pattern Description: Multiple forward primers or Single forward primer.

Programmatic Pattern: (_String | {_String..}) | Automatic

Index Matches to: Sample

ReactionVolume

The total volume of the reaction including the template, primers, master mix, and buffer.

Default Value: 20 microliters

Pattern Description: Greater than or equal to 10 microliters and less than or equal to 100 microliters.

Programmatic Pattern: RangeP[10*Microliter, 100*Microliter]

PreparedPlate

Indicates if the input sample or container has already been prepared and does not need to be diluted/mixed with master mix or buffer. If set to True, MasterMix and Buffer will be set to Null and the input sample will be used as is.

Default Value: Automatic

Default Calculation: Automatically set to True if MasterMix and Buffer are set to Null and no primers were specified. Otherwise set to False.

Pattern Description: True or False.

Programmatic Pattern: BooleanP | Automatic

MasterMix

The stock solution composed of the polymerase, nucleotides, and buffer for amplifying the target sequences.

Default Value: Automatic

Default Calculation: Automatically set to $PCRDefaultMasterMix if PreparedPlate is not True.

Pattern Description: An object of type or subtype Model[Sample] or Object[Sample] or a prepared sample or Null.

Programmatic Pattern: ((ObjectP[{Model[Sample], Object[Sample]}] | _String) | Automatic) | Null

MasterMixVolume

The volume of master mix to add to the reaction.

Default Value: Automatic

Default Calculation: Automatically set to 0.5*ReactionVolume if MasterMix is not set to Null, or Null otherwise.

Pattern Description: Greater than or equal to 0 microliters and less than or equal to 100 microliters or Null.

Programmatic Pattern: (RangeP[0*Microliter, 100*Microliter] | Automatic) | Null

Buffer

The solution for bringing each reaction to ReactionVolume once all the reaction components (template, primers, and master mix) are added.

Default Value: Automatic

Default Calculation: Automatically set to Model[Sample,"Milli-Q water"] if PreparedPlate is not True.

Pattern Description: An object of type or subtype Model[Sample] or Object[Sample] or a prepared sample or Null.

Programmatic Pattern: ((ObjectP[{Model[Sample], Object[Sample]}] | _String) | Automatic) | Null

Post Experiment

ForwardPrimerStorageCondition

For each sample, the non-default conditions under which the forward primers of this experiment should be stored after the protocol is completed. If left unset, the forward primers will be stored according to their current StorageCondition.

Default Value: Null

Pattern Description: Multiple forward primers or Single forward primer or Null.

Programmatic Pattern: (Null | ((SampleStorageTypeP | Disposal) | {(SampleStorageTypeP | Disposal)..})) | Null

Index Matches to: Sample

ReversePrimerStorageCondition

For each sample, the non-default conditions under which the reverse primers of this experiment should be stored after the protocol is completed. If left unset, the reverse primers will be stored according to their current StorageCondition.

Default Value: Null

Default Value: False

Pattern Description: True or False or Null.

Programmatic Pattern: (Null | BooleanP) | Null

Preparatory Incubation

Incubate

Default Value: Automatic

Default Calculation: Resolves to True if any of the corresponding Incubation options are set. Otherwise, resolves to False.

Pattern Description: True or False.

Programmatic Pattern: BooleanP | Automatic

Index Matches to: Sample

IncubationTemperature

Temperature at which the SamplesIn should be incubated for the duration of the IncubationTime prior to starting the experiment.

Default Value: Automatic

Pattern Description: Ambient or greater than or equal to -20 degrees Celsius and less than or equal to 500 degrees Celsius or Null.

Programmatic Pattern: ((Null | (Ambient | RangeP[$MinIncubationTemperature, $MaxIncubationTemperature])) | Automatic) | Null

Index Matches to: Sample

Default Value: Automatic

Default Calculation: Automatically resolves to True if MaxIncubationTime or MaxNumberOfMixes is set.

Pattern Description: True or False or Null.

Programmatic Pattern: ((Null | BooleanP) | Automatic) | Null

Index Matches to: Sample

MaxIncubationTime

Default Value: Automatic

Default Calculation: Automatically resolves based on MixType, MixUntilDissolved, and the container of the given sample.

Pattern Description: Greater than or equal to 1 minute and less than or equal to 72 hours or Null.

Programmatic Pattern: ((Null | RangeP[1*Minute, $MaxExperimentTime]) | Automatic) | Null

Index Matches to: Sample

IncubationInstrument

The instrument used to perform the Mix and/or Incubation, prior to starting the experiment.

Default Value: Automatic

Default Calculation: Automatically resolves based on the options Mix, Temperature, MixType and container of the sample.

Programmatic Pattern: ((Null | ObjectP[Join[MixInstrumentModels, MixInstrumentObjects]]) | Automatic) | Null

Index Matches to: Sample

AnnealingTime

Minimum duration for which the SamplesIn should remain in the incubator allowing the system to settle to room temperature after the IncubationTime has passed but prior to starting the experiment.

Default Value: Automatic

Pattern Description: Greater than or equal to 0 minutes and less than or equal to 72 hours or Null.

Programmatic Pattern: ((Null | RangeP[0*Minute, $MaxExperimentTime]) | Automatic) | Null

Index Matches to: Sample

The instrument that should be used to perform the filtration.

Default Value: Automatic

Default Calculation: Will automatically resolved to an instrument appropriate for the filtration type.

Index Matches to: Sample

Filter

The filter that should be used to remove impurities from the SamplesIn prior to starting the experiment.

Default Value: Automatic

Default Calculation: Will automatically resolve to a filter appropriate for the filtration type and instrument.

Pattern Description: An object of type or subtype Model[Container, Plate, Filter], Model[Container, Vessel, Filter], or Model[Item, Filter] or Null.

Programmatic Pattern: ((Null | ObjectP[{Model[Container, Plate, Filter], Model[Container, Vessel, Filter], Model[Item, Filter]}]) | Automatic) | Null

Index Matches to: Sample

FilterMaterial

The membrane material of the filter that should be used to remove impurities from the SamplesIn prior to starting the experiment.

Default Value: Automatic

Default Calculation: Resolves to an appropriate filter material for the given sample is Filtration is set to True.

Programmatic Pattern: ((Null | FilterMembraneMaterialP) | Automatic) | Null

Index Matches to: Sample

PrefilterMaterial

The material from which the prefilter filtration membrane should be made of to remove impurities from the SamplesIn prior to starting the experiment.

Default Value: Automatic

Default Calculation: By default, no prefiltration is performed on samples, even when Filter->True.

Programmatic Pattern: ((Null | FilterMembraneMaterialP) | Automatic) | Null

Index Matches to: Sample

FilterPoreSize

The pore size of the filter that should be used when removing impurities from the SamplesIn prior to starting the experiment.

Default Value: Automatic

Default Calculation: Resolves to an appropriate filter pore size for the given sample is Filtration is set to True.

Programmatic Pattern: ((Null | FilterSizeP) | Automatic) | Null

Index Matches to: Sample

The desired container filtered samples should be produced in or transferred into by the end of filtration, with indices indicating grouping of samples in the same plates, if desired.

Default Value: Automatic

Default Calculation: Automatically set as the PreferredContainer for the Volume of the sample. For plates, attempts to fill all wells of a single plate with the same model before using another one.

Pattern Description: An object of type or subtype Model[Container] or Object[Container] or a prepared sample or {Index, Container} or Null.

Index Matches to: Sample

FilterAliquotDestinationWell

The desired position in the corresponding AliquotContainer in which the aliquot samples will be placed.

Default Value: Automatic

Default Calculation: Automatically resolves to A1 in containers with only one position. For plates, fills wells in the order provided by the function AllWells.

Pattern Description: Any well from A1 to H12 or Null.

Programmatic Pattern: ((Null | WellPositionP) | Automatic) | Null

Index Matches to: Sample

Default Value: Automatic

Pattern Description: All or Count or Count or Mass or Volume or Null.

Index Matches to: Sample

TargetConcentration

Default Value: Automatic

Default Calculation: Automatically calculated based on aliquot and buffer volumes.

Pattern Description: Greater than 0 molar or greater than 0 grams per liter or Null.

Programmatic Pattern: ((Null | (GreaterP[0*Molar] | GreaterP[0*(Gram/Liter)])) | Automatic) | Null

Index Matches to: Sample

TargetConcentrationAnalyte

The substance whose final concentration is attained with the TargetConcentration option.

Default Value: Automatic

Programmatic Pattern: ((Null | ObjectP[IdentityModelTypes]) | Automatic) | Null

Index Matches to: Sample

AssayVolume

The desired total volume of the aliquoted sample plus dilution buffer.

Default Value: Automatic

Default Calculation: Automatically determined based on Volume and TargetConcentration option values.

Pattern Description: Greater than or equal to 1 microliter and less than or equal to 20 liters or Null.

Programmatic Pattern: ((Null | RangeP[1*Microliter, 20*Liter]) | Automatic) | Null

Index Matches to: Sample

The buffer that should be added to any aliquots requiring dilution, where the volume of this buffer added is the difference between the AliquotAmount and the total AssayVolume.

Default Value: Automatic

Default Calculation: Automatically resolves to Model[Sample, "Milli-Q water"] if ConcentratedBuffer is not specified; otherwise, resolves to Null.

Pattern Description: An object of type or subtype Model[Sample] or Object[Sample] or a prepared sample or Null.

Programmatic Pattern: ((Null | (ObjectP[{Model[Sample], Object[Sample]}] | _String)) | Automatic) | Null

Index Matches to: Sample

AliquotSampleStorageCondition

The non-default conditions under which any aliquot samples generated by this experiment should be stored after the protocol is completed.

Default Value: Automatic

Programmatic Pattern: ((Null | (SampleStorageTypeP | Disposal)) | Automatic) | Null

Index Matches to: Sample

DestinationWell

The desired position in the corresponding AliquotContainer in which the aliquot samples will be placed.

Default Value: Automatic

Default Calculation: Automatically resolves to A1 in containers with only one position. For plates, fills wells in the order provided by the function AllWells.

Pattern Description: Any well from A1 to H12 or list of one or more any well from A1 to H12 or any well from A1 to H12 entries or Null.

Programmatic Pattern: ((WellPositionP | {((Automatic | Null) | WellPositionP)..}) | Automatic) | Null

AliquotContainer

Default Value: Automatic

AliquotPreparation

Indicates the desired scale at which liquid handling used to generate aliquots will occur.

Default Value: Automatic

Default Calculation: Automatic resolution will occur based on manipulation volumes and container types.

Pattern Description: Manual or Robotic or Null.

Programmatic Pattern: (PreparationMethodP | Automatic) | Null

Denaturation

DenaturationTime

The length of time for which the sample is held at DenaturationTemperature to allow the dissociation of the double stranded template into single strands.

Default Value: 30 seconds

Pattern Description: Greater than or equal to 1 second and less than or equal to 1 hour.

Programmatic Pattern: RangeP[1*Second, 1*Hour]

DenaturationTemperature

The temperature to which the sample is heated to allow the dissociation of the double stranded template into single strands.

Default Value: 95 degrees Celsius

Pattern Description: Greater than or equal to 4 degrees Celsius and less than or equal to 105 degrees Celsius.

Programmatic Pattern: RangeP[4*Celsius, 105*Celsius]

DenaturationRampRate

The rate at which the sample is heated to reach DenaturationTemperature.

Default Value: 3.5 degrees Celsius per second

Pattern Description: Greater than or equal to 0.2 degrees Celsius per second and less than or equal to 3.5 degrees Celsius per second.

Programmatic Pattern: RangeP[0.2*(Celsius/Second), 3.5*(Celsius/Second)]

Primer Annealing

PrimerAnnealing

Indicates if annealing should be performed as a separate step instead of as part of extension. Lowering the temperature during annealing allows primers to bind to the template and serve as anchor points for the polymerase in the subsequent extension.

Default Value: Automatic

Default Calculation: Automatically set to True if other PrimerAnnealing options are set, or False otherwise.

Pattern Description: True or False.

Programmatic Pattern: BooleanP | Automatic

PrimerAnnealingTime

The length of time for which the sample is held at PrimerAnnealingTemperature to allow primers to bind to the template.

Default Value: Automatic

Default Calculation: Automatically set to 30 seconds if PrimerAnnealing is set to True, or Null otherwise.

Pattern Description: Greater than or equal to 1 second and less than or equal to 1 hour or Null.

Programmatic Pattern: (RangeP[1*Second, 1*Hour] | Automatic) | Null

PrimerAnnealingTemperature

The temperature to which the sample is cooled to allow primers to bind to the template.

Default Value: Automatic

Default Calculation: Automatically set to 60 degrees Celsius if PrimerAnnealing is set to True, or Null otherwise.

Pattern Description: Greater than or equal to 4 degrees Celsius and less than or equal to 105 degrees Celsius or Null.

Programmatic Pattern: (RangeP[4*Celsius, 105*Celsius] | Automatic) | Null

PrimerAnnealingRampRate

The rate at which the sample is cooled to reach PrimerAnnealingTemperature.

Default Value: Automatic

Default Calculation: Automatically set to 3.5 degrees Celsius per second if PrimerAnnealing is set to True, or Null otherwise.

Pattern Description: Greater than or equal to 0.2 degrees Celsius per second and less than or equal to 3.5 degrees Celsius per second or Null.

Programmatic Pattern: (RangeP[0.2*(Celsius/Second), 3.5*(Celsius/Second)] | Automatic) | Null

Strand Extension

ExtensionTime

The length of time for which sample is held at ExtensionTemperature to allow the polymerase to synthesize a new strand using the template and primers.

Default Value: 60 seconds

Pattern Description: Greater than or equal to 1 second and less than or equal to 1 hour.

Programmatic Pattern: RangeP[1*Second, 1*Hour]

ExtensionTemperature

The temperature to which the sample is heated/cooled to allow the polymerase to synthesize a new strand using the template and primers.

Default Value: 72 degrees Celsius

Pattern Description: Greater than or equal to 4 degrees Celsius and less than or equal to 105 degrees Celsius.

Programmatic Pattern: RangeP[4*Celsius, 105*Celsius]

ExtensionRampRate

The rate at which the sample is heated/cooled to reach ExtensionTemperature.

Default Value: 3.5 degrees Celsius per second

Pattern Description: Greater than or equal to 0.2 degrees Celsius per second and less than or equal to 3.5 degrees Celsius per second.

Programmatic Pattern: RangeP[0.2*(Celsius/Second), 3.5*(Celsius/Second)]

Cycling

NumberOfCycles

The number of times the sample will undergo repeated cycles of denaturation, primer annealing (optional), and strand extension.

Default Value: 40

Pattern Description: Greater than or equal to 1 and less than or equal to 60 in increments of 1.

Programmatic Pattern: RangeP[1, 60, 1]

Final Extension

FinalExtension

Indicates if final extension should be performed to fill in any incomplete products and/or obtain a poly-adenosine overhang on the 3' end of the product.

Default Value: Automatic

Default Calculation: Automatically set to True if other FinalExtension options are set, or False otherwise.

Pattern Description: True or False.

Programmatic Pattern: BooleanP | Automatic

FinalExtensionTime

The length of time for which the sample is held at FinalExtensionTemperature to fill in any incomplete products and/or obtain a poly-adenosine overhang on the 3' end of the product.

Default Value: Automatic

Default Calculation: Automatically set to 10 minutes if FinalExtension is set to True, or Null otherwise

Pattern Description: Greater than or equal to 1 second and less than or equal to 1 hour or Null.

Programmatic Pattern: (RangeP[1*Second, 1*Hour] | Automatic) | Null

FinalExtensionTemperature

The temperature to which the sample is heated/cooled to to fill in any incomplete products and/or obtain a poly-adenosine overhang on the 3' end of the product.

Default Value: Automatic

Default Calculation: Automatically set to ExtensionTemperature if FinalExtension is set to True, or Null otherwise.

Pattern Description: Greater than or equal to 4 degrees Celsius and less than or equal to 105 degrees Celsius or Null.

Programmatic Pattern: (RangeP[4*Celsius, 105*Celsius] | Automatic) | Null

FinalExtensionRampRate

The rate at which the sample is heated/cooled to reach ActivationTemperature.

Default Value: Automatic

Default Calculation: Automatically set to 3.5 degrees Celsius per second if FinalExtension is set to True, or Null otherwise.

Pattern Description: Greater than or equal to 0.2 degrees Celsius per second and less than or equal to 3.5 degrees Celsius per second or Null.

Programmatic Pattern: (RangeP[0.2*(Celsius/Second), 3.5*(Celsius/Second)] | Automatic) | Null

Infinite Hold

HoldTemperature

The temperature to which the sample is cooled and held after the thermocycling procedure.

Default Value: 10 degrees Celsius

Pattern Description: Greater than or equal to 4 degrees Celsius and less than or equal to 105 degrees Celsius.

Programmatic Pattern: RangeP[4*Celsius, 105*Celsius]

PickColonies

Options

The options that specify the parameters of this unit operation.

Pattern: {_Rule..}

General

Sample

Input samples that colonies are growing on and are picked from.

Default Value: Null

Pattern Description: Container with Well Position or Sample or Container or Null.

Programmatic Pattern: (ObjectP[{Object[Sample], Object[Container]}] | _String) | {Alternatives @@ Flatten[AllWells[NumberOfWells -> 384]], ObjectP[{Object[Container]}] | _String}

Index Matches to: Sample

SampleOutLabel

For each sample, the label of the sample(s) that will be created in this experiment, which is used for identification elsewhere in sample preparation.

Default Value: Automatic

Pattern Description: List of one or more a string entries or Null.

Programmatic Pattern: ((Null | {_String..}) | Automatic) | Null

Index Matches to: Sample

Nested Index Matches to: Sample

ContainerOutLabel

For each sample, the label of the container(s) of the sample(s) that will be created in this experiment, which is used for identification elsewhere in sample preparation.

Default Value: Automatic

Pattern Description: Label of Multiple Object Containers or Model Container or Label of Single Object Container or Null.

Programmatic Pattern: ((Null | (_String | {_String..})) | Automatic) | Null

Index Matches to: Sample

Nested Index Matches to: Sample

Instrument

The robotic instrument that is used to transfer colonies incubating on solid media to fresh liquid or solid media.

Default Value: Automatic

Pattern Description: An object of type or subtype Model[Instrument, ColonyHandler] or Object[Instrument, ColonyHandler]

Programmatic Pattern: ObjectP[{Model[Instrument, ColonyHandler], Object[Instrument, ColonyHandler]}] | Automatic

NumberOfReplicates

The number of times a colony selection should be picked from the input and placed in or on liquid or solid media.

Default Value: Null

Pattern Description: Greater than or equal to 2 in increments of 1 or Null.

Programmatic Pattern: GreaterEqualP[2, 1] | Null

Preparation

Default Value: Robotic

Pattern Description: Robotic.

Programmatic Pattern: Robotic

WorkCell

Indicates the work cell that this primitive will be run on if Preparation->Robotic.

Default Value: qPix

Pattern Description: QPix.

Programmatic Pattern: qPix

Characterization

Populations

For each sample, the criteria used to group colonies together into a population to pick. Criteria are based on the ordering of colonies by the desired feature(s): diameter, regularity, circularity, isolation, fluorescence, and absorbance. Additionally, CustomCoordinates can be specified, which work in conjunction with the PickCoordinates option to select colonies based on pre-determined locations. For more information see documentation on colony population Unit Operations: Diameter, Isolation, Regularity, Circularity, Fluorescence, Absorbance, MultiFeatured, and AllColonies under Experiment Principles section.

Pattern Description: Greater than or equal to 0 and less than or equal to 1 or Null.

Programmatic Pattern: (Null | RangeP[0, 1]) | Null

Index Matches to: Sample

MaxRegularityRatio

Default Value: 1.

Pattern Description: Greater than or equal to 0 and less than or equal to 1 or Null.

Programmatic Pattern: (Null | RangeP[0, 1]) | Null

Index Matches to: Sample

MinCircularityRatio

Default Value: 0.65

Pattern Description: Greater than or equal to 0 and less than or equal to 1 or Null.

Programmatic Pattern: (Null | RangeP[0, 1]) | Null

Index Matches to: Sample

MaxCircularityRatio

Default Value: Automatic

Default Calculation: Automatically set to Null if not specified.

Pattern Description: List of one or more {XCoordinate, YCoordinate} entries or Null.

Programmatic Pattern: ((Null | {{RangeP[-63*Millimeter, 63*Millimeter], RangeP[-43*Millimeter, 43*Millimeter]}..}) | Automatic) | Null

Index Matches to: Sample

Imaging

ImagingStrategies

Default Value: Automatic

Pattern Description: Multiple Imaging Strategies or Single Imaging Strategy.

Index Matches to: Sample

ExposureTimes

Pattern Description: Row, Column, or CustomCoordinates.

Programmatic Pattern: DestinationFillDirectionP

Post Experiment

SamplesInStorageCondition

The non-default conditions under which the SamplesIn of this experiment should be stored after the protocol is completed. If left unset, SamplesIn will be disposed.

Default Value: Disposal

Programmatic Pattern: Alternatives[SampleStorageTypeP | Disposal]

Index Matches to: Sample

SamplesOutStorageCondition

Default Value: Null

Programmatic Pattern: (Null | (Alternatives[SampleStorageTypeP | Disposal])) | Null

Index Matches to: Sample

Nested Index Matches to: Sample

MeasureWeight

Default Value: False

Pattern Description: True or False or Null.

Programmatic Pattern: (Null | BooleanP) | Null

MeasureVolume

Default Value: False

Pattern Description: True or False or Null.

Programmatic Pattern: (Null | BooleanP) | Null

ImageSample

Pattern Description: Greater than 0 seconds or Null.

Programmatic Pattern: ((Null | GreaterP[0*Second]) | Automatic) | Null

Index Matches to: Sample

QuantifyCells

Options

The options that specify the parameters of this unit operation.

Pattern: {_Rule..}

General

Sample

The cell samples to be quantified.

Default Value: Null

Pattern Description: Container with Well Position or Sample or Container or Null.

Index Matches to: Sample

SampleLabel

A user defined word or phrase used to identify the input samples to be quantified, for use in downstream unit operations.

Default Value: Automatic

Pattern Description: A string.

Programmatic Pattern: _String | Automatic

Index Matches to: Sample

SampleContainerLabel

A user defined word or phrase used to identify the container of the input samples to be quantified, for use in downstream unit operations.

Default Value: Automatic

Pattern Description: A string.

Programmatic Pattern: _String | Automatic

Index Matches to: Sample

RecoupSample

Indicates if the aliquots from the corresponding input cell samples used for quantification measurement are returned to input cell samples after the protocol is completed.

Default Value: False

Pattern Description: True or False or Null.

Programmatic Pattern: (Null | BooleanP) | Null

Index Matches to: Sample

Methods

The experimental instrumentation used to measure the cell concentration in the input cell samples. Instrumentation options include: 1) Absorbance, where the absorbance (at the provided Wavelength) of the cell sample is measured using a spectrophotometer or plate reader and then converted to QuantificationUnit using the AbsorbanceStandardCurve or AbsorbanceStandardCoefficient; 2) Nephelometry, where the scattered light attenuation of the cell sample at 653 nm is measured using a nephelometer and then converted to QuantificationUnit using the NephelometryStandardCurve or NephelometryStandardCoefficient. The order of methods dictates the order of operations when the protocol is executed in the lab.

Default Value: Automatic

Default Calculation: Automatically set to Absorbance if any Absorbance options are provided or Instruments is set to a Spectrophotometer or PlateReader. Automatically set to Nephelometry if any Nephelometry options are provided or Instruments is set to a Nephelometer. Otherwise, if QuantificationUnit is set, Methods is automatically set to the instrumentation that can generate the raw experimental result in the same unit as QuantificationUnit. If the QuantificationUnit is not directly accessible by any instrumentation, Methods is automatically set to the instrumentation of the raw experimental unit that can be converted to the QuantificationUnit using StandardCurve/StandardCoefficient options, or using the standard curve found from the input cell samples' cell Composition. Otherwise, automatically set to Absorbance.

Pattern Description: A selection of one or more of Absorbance or Nephelometry.

Programmatic Pattern: CellQuantificationMethodP | Automatic

Index Matches to: Methods

Instruments

The instrument used to measure the absorbance (at the provided Wavelength) or nephelometry (scattered light attenuation) for the input cell samples.

Default Value: Automatic

Default Calculation: Automatically set to include one of the spectrophotometer or plate reader models if Methods include Absorbance. Automatically set to include one of the nephelometer models if Methods include Nephelometry. Please see documentation of ExperimentAbsorbanceIntensity and ExperimentNephelometry for more details on the how the instrument option is determined given the input cell samples and corresponding Absorbance/Nephelometry options.

Pattern Description: An object of type or subtype Model[Instrument, PlateReader], Object[Instrument, PlateReader], Model[Instrument, Spectrophotometer], Object[Instrument, Spectrophotometer], Model[Instrument, Nephelometer], or Object[Instrument, Nephelometer]

Programmatic Pattern: ObjectP[{Model[Instrument, PlateReader], Object[Instrument, PlateReader], Model[Instrument, Spectrophotometer], Object[Instrument, Spectrophotometer], Model[Instrument, Nephelometer], Object[Instrument, Nephelometer]}] | Automatic

Index Matches to: Methods

Preparation

Default Value: Automatic

Pattern Description: Manual or Robotic.

Programmatic Pattern: PreparationMethodP | Automatic

WorkCell

Indicates the work cell that this primitive will be run on if Preparation->Robotic.

Default Value: Automatic

Default Calculation: Automatically set to STAR if Preparation->Robotic.

Pattern Description: STAR, bioSTAR, or microbioSTAR or Null.

Programmatic Pattern: ((STAR | bioSTAR | microbioSTAR) | Automatic) | Null

MultiMethodAliquots

Indicates if a single aliquot is taken from the input cell samples and reused in all quantification measurements (Shared) or if each measurement takes a new aliquot from the input cell samples (Individual).

Default Value: Shared

Pattern Description: Shared or Individual.

Programmatic Pattern: MultiMethodAliquotsP

Post Experiment

SamplesInStorageCondition

Default Value: Null

Programmatic Pattern: (Null | (Alternatives[SampleStorageTypeP | Disposal])) | Null

Index Matches to: Sample

NumberOfReplicates

The number of times each of the input samples is analyzed using identical experimental parameters. If Absorbance/NephelometryAliquot is set to True, the number of replicate aliquots to prepare from each input cell sample under same aliquot conditions .

Default Value: Null

Pattern Description: Greater than or equal to 2 in increments of 1 or Null.

Programmatic Pattern: (Null | GreaterEqualP[2, 1]) | Null

Analysis

QuantificationUnit

The preferred unit of cell concentration to update the composition of the input sample after the quantification measurement. If the specified unit cannot be directly measured with the specified quantification Methods, Absorbance/NephelometryStandardCurve or Absorbance/NephelometryStandardCoefficient will be used to convert the raw experimental result. If the Absorbance/NephelometryStandardCurve or Absorbance/NephelometryStandardCoefficient information is neither provided nor available from the input samples' cell compositions, the unit that is directly measured with the specified quantification Methods will be used to update the composition. The final concentration used to update the composition is the mean value of any raw experimental results and any converted values from the raw experimental result in the unit of QuantificationUnit. If the QuantificationUnit is neither convertible nor directly measured from the quantification Methods, the composition of the input sample will not be updated. If the input sample contains more than one cell type, its composition will not be updated given that the quantification Methods only measure one overall quantity of all contents in the sample.

Index Matches to: Sample

AbsorbanceAssayVolume

The desired total volume of the aliquoted sample plus AbsorbanceAssayBuffer.

Default Value: Automatic

Default Calculation: Automatically determined based on Volume and TargetConcentration option values.

Pattern Description: Greater than or equal to 1 microliter and less than or equal to 20 liters or Null.

Programmatic Pattern: ((Null | RangeP[1*Microliter, 20*Liter]) | Automatic) | Null

Index Matches to: Sample

AbsorbanceAliquotSampleStorageCondition

The non-default conditions under which any unused aliquot sample generated for Absorbance measurement is stored after the protocol is completed.

Default Value: Automatic

Programmatic Pattern: ((Null | (SampleStorageTypeP | Disposal)) | Automatic) | Null

Index Matches to: Sample

NephelometryAliquot

Indicates if an aliquot is taken from the input cell sample or the aliquot from the previous quantification measurements (if any), and is used for the subsequent Nephelometry measurement. If NumberOfReplicates is specified this indicates that the input samples will also be aliquoted that number of times.

Default Value: Automatic

Pattern Description: True or False or Null.

Programmatic Pattern: ((Null | BooleanP) | Automatic) | Null

Index Matches to: Sample

NephelometryAssayBuffer

The solution that is added to the aliquot taken from the input cell sample or the aliquot from the previous quantification measurements (if any). The volume of this solution added is the difference between the NephelometryAliquotAmount and the NephelometryAssayVolume.

Default Value: Automatic

Default Calculation: Automatically resolves to Model[Sample, "Milli-Q water"] if ConcentratedBuffer is not specified; otherwise, resolves to Null.

Pattern Description: An object of type or subtype Model[Sample] or Object[Sample] or a prepared sample or Null.

Programmatic Pattern: ((Null | (ObjectP[{Model[Sample], Object[Sample]}] | _String)) | Automatic) | Null

Index Matches to: Sample

NephelometryAliquotAmount

The amount of the sample that is transferred from the input cell sample or the aliquot from the previous quantification measurements (if any) into the new aliquot.

Default Value: Automatic

Pattern Description: All or Count or Count or Mass or Volume or Null.

Index Matches to: Sample

NephelometryAssayVolume

The desired total volume of the aliquoted sample plus NephelometryAssayBuffer.

Default Value: Automatic

Default Calculation: Automatically determined based on Volume and TargetConcentration option values.

Pattern Description: Greater than or equal to 1 microliter and less than or equal to 20 liters or Null.

Programmatic Pattern: ((Null | RangeP[1*Microliter, 20*Liter]) | Automatic) | Null

Index Matches to: Sample

NephelometryAliquotSampleStorageCondition

The non-default conditions under which any unused aliquot sample generated for Nephelometry measurement is stored after the protocol is completed.

Default Value: Automatic

NephelometryBlankMeasurement

Default Calculation: If any of the SamplesIn provided has a volume less than 500 Micro Liter, set to microfluidic. Otherwise, if there are less 8 samples, set to Cuvette. If none of options are true, set to PlateReader

Pattern Description: PlateReader or Cuvette or Null.

Programmatic Pattern: ((PlateReader | Cuvette) | Automatic) | Null

SpectralBandwidth

When using the Cuvette Method, indicates the physical size of the slit from which light passes out from the monochromator. The narrower the bandwidth, the greater the resolution in measurements.

Default Value: Null

Pattern Description: Greater than or equal to 0.1 percent and less than or equal to 20 percent or Null.

Programmatic Pattern: (Null | RangeP[0.1*Percent, 20*Percent]) | Null

AbsorbanceAtmosphereEquilibrationTime

The length of time for which the samples equilibrate at the requested oxygen and carbon dioxide level before being read.

Default Value: Automatic

Default Calculation: Automatically set to 5 Minute if TargetCarbonDioxideLevel or TargetOxygenLevel is specified. Otherwise, set to Null.

Pattern Description: Greater than or equal to 0 seconds and less than or equal to 24 hours or Null.

Programmatic Pattern: ((Null | RangeP[0*Second, 24*Hour]) | Automatic) | Null

Default Value: Null

Pattern Description: Greater than or equal to 0.1 percent and less than or equal to 20 percent or Null.

Programmatic Pattern: (Null | RangeP[0.1*Percent, 20*Percent]) | Null

NephelometryAtmosphereEquilibrationTime

The length of time for which the samples equilibrate at the requested oxygen and carbon dioxide level before being read.

Default Value: Automatic

Pattern Description: Greater than or equal to 20 milliseconds and less than or equal to 10 seconds or Null.

Programmatic Pattern: (RangeP[20*Millisecond, 10*Second] | Automatic) | Null

QuantifyColonies

Options

The options that specify the parameters of this unit operation.

Pattern: {_Rule..}

General

Sample

The samples containing microbial colonies that are counted.

Default Value: Null

Pattern Description: Container with Well Position or Sample or Container or Null.

Index Matches to: Sample

SampleLabel

A user defined word or phrase used to identify the input samples to be quantified, for use in downstream unit operations.

Default Value: Automatic

Pattern Description: A string.

Programmatic Pattern: _String | Automatic

Index Matches to: Sample

SampleContainerLabel

A user defined word or phrase used to identify the container of the input samples to be quantified, for use in downstream unit operations.

Default Value: Automatic

Pattern Description: A string.

Programmatic Pattern: _String | Automatic

Index Matches to: Sample

ImagingInstrument

The instrument used to image colonies on solid media. For more details on imaging mechanism, refer to Figure 3.1.

Default Value: Model[Instrument, ColonyHandler, QPix 420 HT]

Pattern Description: An object of type or subtype Model[Instrument, ColonyHandler] or Object[Instrument, ColonyHandler]

Programmatic Pattern: ObjectP[{Model[Instrument, ColonyHandler], Object[Instrument, ColonyHandler]}]

PreparedSample

Indicates if the provided samples containing microbial cells that are counted have been previously transferred onto a solid media plate and cultivated to grow colonies. If PreparedSample is set to True, the provided sample container is placed directly into the imaging instrument for imaging and counting, bypassing the cell spreading and incubation steps.

Default Value: Automatic

Default Calculation: Set to False if the provided samples is not in the state of Solid, otherwise set to True.

Pattern Description: True or False.

Programmatic Pattern: BooleanP | Automatic

WorkCell

Indicates the work cell that this primitive will be run on if Preparation->Robotic.

Default Value: Automatic

Default Calculation: Automatically set to qPix if Preparation->Robotic.

Pattern Description: QPix or Null.

Programmatic Pattern: (qPix | Automatic) | Null

Index Matches to: Sample

PopulationCellTypes

For each sample, and for each population, the cell type thought to represent the physiological characteristics defined in the Populations.

Default Value: Automatic

Default Calculation: Automatically set to the cell type of the analyte or the cell model of highest concentration from the input sample.

Pattern Description: CellType for single Colony Population or CellTypes for Multiple Colony Populations.

Programmatic Pattern: ((Bacterial | Yeast) | {(Bacterial | Yeast)..}) | Automatic

Index Matches to: Sample

PopulationIdentities

For each sample, and for each population, the cell constituent thought to represent the physiological characteristics defined in the Populations. If given as a string, a new Model[Cell] with the given name will be created with the type specified in option PopulationCellTypes and the current model of the given sample will be removed after quantification step.

Default Value: Automatic

Default Calculation: Automatically set to the cell model of the analyte or the cell model if there is only one cell model in the Composition of the input sample, otherwise set to "Characterized Colony from <SampleID> #", and the protocol ID is always appended to the end of name string automatically at the time of model creation.

Pattern Description: CellIdentities for Multiple Colony Populations or CellIdentity for single Colony Population.

Programmatic Pattern: ((_String | ObjectP[{Model[Cell, Bacteria], Model[Cell, Yeast]}]) | {(_String | ObjectP[{Model[Cell, Bacteria], Model[Cell, Yeast]}])..}) | Automatic

Index Matches to: Sample

MinReliableColonyCount

The smallest number of colonies that can be counted on a solid media plate to provide a statistically reliable estimate of the concentration of microorganisms in a sample. Below this number, the count is considered statistically unreliable and the result is typically referred to as "Too Few To Count" (TFTC). See Figure 3.2 for more information about reliable counting range.

Default Value: Automatic

Default Calculation: If PreparedSample is set to False, automatically set to 30, otherwise set to 1.

Pattern Description: Greater than or equal to 1 and less than or equal to 100 in increments of 1.

Programmatic Pattern: RangeP[1, 100, 1] | Automatic

MaxReliableColonyCount

The largest number of colonies that can be counted on a solid media plate beyond which accurate counting becomes impractical and unreliable. This threshold is typically set at 300 colonies. When the number of colonies exceeds this limit, it is difficult to distinguish and count individual colonies accurately, and the result is typically referred as "Too Numerous To Count" (TNTC). See Figure 3.2 for more information about reliable counting range.

Default Value: 300

Pattern Description: Greater than or equal to 1 and less than or equal to 1000 in increments of 1.

Programmatic Pattern: RangeP[1, 1000, 1]

MinDiameter

The smallest diameter value from which colonies will be included in TotalColonyCounts in the data and analysis. The diameter is defined as the diameter of a circle with the same area as the colony. See Figure 3.3 for more information.

Default Value: 0.5 millimeters

Pattern Description: Greater than 0 millimeters or Null.

Programmatic Pattern: (Null | GreaterP[0*Millimeter]) | Null

Index Matches to: Microscope data

MaxDiameter

The largest diameter value from which colonies will be included in TotalColonyCounts in the data and analysis. The diameter is defined as the diameter of a circle with the same area as the colony. See Figure 3.3 for more information.

Default Value: 2 millimeters

Pattern Description: Greater than 0 millimeters or Null.

Programmatic Pattern: (Null | GreaterP[0*Millimeter]) | Null

Index Matches to: Microscope data

MinColonySeparation

The closest distance included colonies can be from each other from which colonies will be included in the data and analysis. The separation of a colony is the shortest path between the perimeter of the colony and the perimeter of any other colony. See Figure 3.4 for more information.

Default Value: 0.2 millimeters

Pattern Description: Greater than 0 millimeters or Null.

Programmatic Pattern: (Null | GreaterP[0*Millimeter]) | Null

Index Matches to: Microscope data

MinRegularityRatio

The smallest regularity ratio from which colonies will be included in the data and analysis. The regularity ratio is the ratio of the area of the colony to the area of a circle with the colony's perimeter. For example, jagged edged shapes will have a longer perimeter than smoother ones and therefore a smaller regularity ratio. See Figure 3.5 for more information.

Default Value: 0.65

Pattern Description: Greater than or equal to 0 and less than or equal to 1 or Null.

Programmatic Pattern: (Null | RangeP[0, 1]) | Null

Index Matches to: Microscope data

MaxRegularityRatio

The largest regularity ratio from which colonies will be included in the data and analysis. The regularity ratio is the ratio of the area of the colony to the area of a circle with the colony's perimeter. For example, jagged edged shapes will have a longer perimeter than smoother ones and therefore a smaller regularity ratio. See Figure 3.5 for more information.

Default Value: 1.

Pattern Description: Greater than or equal to 0 and less than or equal to 1 or Null.

Programmatic Pattern: (Null | RangeP[0, 1]) | Null

Index Matches to: Microscope data

MinCircularityRatio

The smallest circularity ratio from which colonies will be included in the data and analysis. The circularity ratio is defined as the ratio of the minor axis to the major axis of the best fit ellipse. For example, a very oblong colony will have a much larger major axis compared to its minor axis and therefore a low circularity ratio. See Figure 3.6 for more information.

Default Value: 0.65

Pattern Description: Greater than or equal to 0 and less than or equal to 1 or Null.

Programmatic Pattern: (Null | RangeP[0, 1]) | Null

Index Matches to: Microscope data

MaxCircularityRatio

The largest circularity ratio from which colonies will be included in the data and analysis. The circularity ratio is defined as the ratio of the minor axis to the major axis of the best fit ellipse. For example, a very oblong colony will have a much larger major axis compared to its minor axis and therefore a low circularity ratio. See Figure 3.6 for more information.

Default Value: 1.

Pattern Description: Greater than or equal to 0 and less than or equal to 1 or Null.

Options

Default Calculation: If the source cells are in liquid media, automatically set to LiquidMedia. If the source container model is hermetic or an ampoule, automatically set to FreezeDried. If the source container is stored in freezer or lower temperature, automatically set to FrozenGlycerol.

Pattern Description: LiquidMedia, FreezeDried, or FrozenGlycerol.

Programmatic Pattern: StreakSpreadInoculationSourceP | Automatic

Preparation

Default Value: Robotic

Pattern Description: Robotic.

Programmatic Pattern: Robotic

WorkCell

NumberOfDilutions

For each sample, the number of diluted samples to prepare.

Default Value: Automatic

Default Calculation: Automatically set to the length of TargetAnalyteConcentration, CumulativeDilutionFactor, or SerialDilutionFactor if provided, otherwise set to 1.

Pattern Description: Greater than or equal to 1 and less than or equal to 100 in increments of 1 or Null.

For each sample, the desired concentration of TargetAnalyte in the final diluted sample. The length of this list must match the corresponding value in NumberOfDilutions. For example, if SerialDilutionFactor is {10,10,10} and the initial concentration of TargetAnalyte is 10 M. The value of TargetAnalyteConcentration will resolve to {1 M, 0.1 M, 0.01 M}.

Default Value: Automatic

Default Calculation: Automatically set based on the systems of equations specified under the DilutionType option.

Pattern Description: Greater than 0 molar or greater than 0 grams per liter or greater than 0 Cells per milliliter or greater than 0 OD600s or greater than 0 Cfus per milliliter or greater than 0 RelativeNephelometricUnits or greater than 0 NephelometricTurbidityUnits or greater than 0 FormazinTurbidityUnits or Null.

Index Matches to: Sample

Nested Index Matches to: Sample

DilutionTransferVolume

For each sample, if DilutionType is set to LinearDilution, the amount of sample that is diluted with Buffer. If DilutionType is set to Serial, the amount of sample transferred from the resulting sample of one round of the dilution series to the next sample in the series. The first transfer source is the original sample provided. The length of this list must match the corresponding value in NumberOfDilutions.

Default Value: Automatic

Default Calculation: Automatically set based on the systems of equations specified under the DilutionType option.

Pattern Description: Greater than or equal to 0 milliliters and less than or equal to 20 liters or Null.

Programmatic Pattern: ((Null | RangeP[0*Milliliter, $MaxTransferVolume]) | Automatic) | Null

Index Matches to: Sample

Nested Index Matches to: Sample

TotalDilutionVolume

For each sample, the total volume of sample, buffer, concentrated buffer, and concentrated buffer diluent. If DilutionType is set to Serial, this is also the volume of the resulting sample before TransferVolume has been removed for use in the next dilution in the series. The length of this list must match the corresponding value in NumberOfDilutions.

Default Value: Automatic

Default Calculation: Automatically set based on the systems of equations specified under the DilutionType option.

Pattern Description: Greater than or equal to 0 milliliters and less than or equal to 20 liters or Null.

Programmatic Pattern: ((Null | RangeP[0*Milliliter, $MaxTransferVolume]) | Automatic) | Null

Index Matches to: Sample

Nested Index Matches to: Sample

DilutionFinalVolume

For each sample, if DilutionType is set to Serial, the volume of the resulting diluted sample after TransferVolume has been removed for use in the next dilution in the series. To control the volume of the final sample in the series, see the DiscardFinalTransfer option. The length of this list must match the corresponding value in NumberOfDilutions.

Default Value: Automatic

Default Calculation: Automatically set based on the systems of equations specified under the DilutionType option.

Pattern Description: Greater than or equal to 0 milliliters and less than or equal to 20 liters or Null.

Programmatic Pattern: ((Null | RangeP[0*Milliliter, $MaxTransferVolume]) | Automatic) | Null

Index Matches to: Sample

Nested Index Matches to: Sample

For each sample, a concentrated version of Buffer that has the same BaselineStock and can be used in place of Buffer if Buffer is not fulfillable but ConcentratedBuffer and ConcentratedBufferDiluent are. Additionally, if DilutionType is set to Serial and the sample Solvent does not match Buffer, but is the ConcentratedBufferDiluent of ConcentratedBuffer, this sample can also be used as a component in an initial mixture to change the Solvent of the input sample to the desired target Buffer.

Default Value: Automatic

Default Calculation: If Diluent is not fulfillable or Diluent does not match the Media/Solvent of the input sample, automatically set to a concentrated version of Diluent that is fulfillable. See the documentation for SampleFulfillableQ for more information about when a sample is fulfillable.

Pattern Description: An object of type or subtype Object[Sample] or Model[Sample] or a prepared sample or Null.

Programmatic Pattern: ((Null | (ObjectP[{Object[Sample], Model[Sample]}] | _String)) | Automatic) | Null

Index Matches to: Sample

ConcentratedBufferVolume

For each sample, if DilutionType is set to Linear, the amount of concentrated buffer added to dilute the sample. If DilutionType is set to Serial, the amount of concentrated buffer added to dilute the sample at each stage of the dilution. The length of this list must match the corresponding value in NumberOfDilutions.

Default Value: Automatic

Default Calculation: Automatically set based on the systems of equations specified under the DilutionType option.

Pattern Description: Greater than or equal to 0 microliters and less than or equal to 20 liters or Null.

Programmatic Pattern: ((Null | RangeP[0*Microliter, $MaxTransferVolume]) | Automatic) | Null

Index Matches to: Sample

Nested Index Matches to: Sample

SpreadPatternType

For each sample, the pattern the spreading colony handler head will move when spreading the colony on the plate. Can be specified as a pre-determined pattern or Custom to indicate the coordinates in CustomSpreadPattern should be used.

Default Value: Spiral

Pattern Description: Spiral, VerticalZigZag, HorizontalZigZag, or Custom.

Programmatic Pattern: SpreadPatternP

Index Matches to: Sample

Programmatic Pattern: ObjectP[{Model[Instrument, ColonyHandler], Object[Instrument, ColonyHandler]}] | Automatic

StreakCells

Options

Pattern Description: LiquidMedia, FreezeDried, or FrozenGlycerol.

Programmatic Pattern: StreakSpreadInoculationSourceP | Automatic

Preparation

Default Value: Robotic

Pattern Description: Robotic.

Programmatic Pattern: Robotic

WorkCell

Index Matches to: Sample

ResuspensionContainerWell

For each Sample, the well of the ResuspensionMediaContainer to contain the cell resuspension.

Default Value: Automatic

Default Calculation: Automatically set to the first empty position of the ResuspensionContainer. If no empty position is found, automatically set to "A1".

Pattern Description: Any well from A1 to P24 or Null.

Programmatic Pattern: ((Null | WellPositionP) | Automatic) | Null

Index Matches to: Sample

NumberOfSourceScrapes

For each sample, the number of times that the frozen glycerol sample is scraped with the tip before it is dipped into the resuspension media and swirled.

Default Value: Automatic

Default Calculation: Automatically set to 5 if InoculationSource is FrozenGlycerol.

Pattern Description: Greater than or equal to 1 and less than or equal to 20 in increments of 1 or Null.

Programmatic Pattern: ((Null | RangeP[1, 20, 1]) | Automatic) | Null

Index Matches to: Sample

ResuspensionMix

For each sample, indicates if the cells in resuspension is mixed after combining the ResuspensionMedia and the source sample.

Default Value: Automatic

Default Calculation: If InoculationSource is FreezeDried or FrozenGlycerol, or if any of the other ResuspensionMix options are set, automatically set to True.

Pattern Description: True or False or Null.

Programmatic Pattern: ((Null | BooleanP) | Automatic) | Null

Index Matches to: Sample

NumberOfResuspensionMixes

For each sample, the number of times that the cells in resuspension is mixed after combining the ResuspensionMedia and the source sample.

Default Value: Automatic

Default Calculation: If InoculationSource is FreezeDried or FrozenGlycerol, or if any of the other ResuspensionMix options are set, automatically set to 5.

Pattern Description: Greater than or equal to 1 and less than or equal to 50 in increments of 1 or Null.

Programmatic Pattern: ((Null | RangeP[1, 50, 1]) | Automatic) | Null

Index Matches to: Sample

Diluent

For each sample, the solution used to reduce the concentration of the sample.

Default Value: Automatic

Default Calculation: Automatically set to the Media field of the input sample, if it is populated. If it is not populated, automatically set to the Solvent field of the input sample.

Pattern Description: An object of type or subtype Object[Sample] or Model[Sample] or a prepared sample or Null.

Programmatic Pattern: ((Null | (ObjectP[{Object[Sample], Model[Sample]}] | _String)) | Automatic) | Null

Index Matches to: Sample

DiluentVolume

Default Value: Automatic

Default Calculation: Automatically set based on the systems of equations specified under the DilutionType option.

Pattern Description: Greater than or equal to 0 milliliters and less than or equal to 20 liters or Null.

Programmatic Pattern: ((Null | RangeP[0*Milliliter, $MaxTransferVolume]) | Automatic) | Null

Index Matches to: Sample

Nested Index Matches to: Sample

DilutionConcentratedBuffer

Default Value: Automatic

Pattern Description: An object of type or subtype Object[Sample] or Model[Sample] or a prepared sample or Null.

Programmatic Pattern: ((Null | (ObjectP[{Object[Sample], Model[Sample]}] | _String)) | Automatic) | Null

Index Matches to: Sample

ConcentratedBufferVolume

Default Value: Automatic

Default Calculation: Automatically set based on the systems of equations specified under the DilutionType option.

Pattern Description: Greater than or equal to 0 microliters and less than or equal to 20 liters or Null.

Programmatic Pattern: ((Null | RangeP[0*Microliter, $MaxTransferVolume]) | Automatic) | Null

Index Matches to: Sample

Nested Index Matches to: Sample

Pattern Description: Roll, Vortex, Sonicate, Pipette, Invert, Stir, Shake, Homogenize, Swirl, Disrupt, or Nutate or Null.

Programmatic Pattern: ((Null | MixTypeP) | Automatic) | Null

Index Matches to: Sample

DilutionNumberOfMixes

Default Value: Automatic

Default Calculation: If MixType is either Invert, Swirl, or Pipette, automatically set to 15.

Pattern Description: Greater than or equal to 1 and less than or equal to 50 in increments of 1 or Null.

Programmatic Pattern: ((Null | RangeP[1, $MaxNumberOfMixes, 1]) | Automatic) | Null

Index Matches to: Sample

Index Matches to: Sample

SourceMix

For each sample, indicates whether the source should be mixed by pipette before being transferred to the agar gel to be streaked.

Default Value: Automatic

Default Calculation: Automatically set to True if either MixVolume or NumberOfMixes are specified. False otherwise.

Pattern Description: True or False or Null.

Programmatic Pattern: ((Null | BooleanP) | Automatic) | Null

Index Matches to: Sample

For each sample, the pattern the streaking colony handler head will move when streaking the colony on the plate. Can be specified as a pre-determined pattern, a modifiable general hatching pattern, or Custom to indicate the coordinates in CustomStreakPattern should be used. See the below figure.

Default Value: RotatedHatches

Pattern Description: RotatedHatches, LinearHatches, Radiant, or Custom.

Programmatic Pattern: StreakPatternP

Index Matches to: Sample

NumberOfSegments

For each sample, if StreakPatternType->RotatedHatches, the number of times the plate is rotated during the streak. If StreakPatternType->LinearHatches, the amount of sections that have sets of hatches. See the below figure for examples.

Default Value: Automatic

Default Calculation: If StreakPatternType->RotatedHatches or LinearHatches, automatically set to 4. Otherwise set to Null.

Pattern Description: Greater than or equal to 1 in increments of 1 or Null.

Programmatic Pattern: ((Null | GreaterEqualP[1, 1]) | Automatic) | Null

Index Matches to: Sample

HatchesPerSegment

For each sample, the number of zig-zags per segment. See the below table for a visual definition.

Default Value: Null

Programmatic Pattern: (Null | (Alternatives[SampleStorageTypeP | Disposal])) | Null

Index Matches to: Sample

SamplesOutStorageCondition

Default Value: Null

Programmatic Pattern: (Null | (Alternatives[SampleStorageTypeP | Disposal])) | Null

Index Matches to: Sample

MeasureWeight

Default Value: False

Pattern Description: True or False or Null.

Programmatic Pattern: (Null | BooleanP) | Null

MeasureVolume

Default Value: False

Pattern Description: True or False or Null.

Programmatic Pattern: (Null | BooleanP) | Null

ImageSample

Pattern Description: Greater than 0 seconds or Null.

Programmatic Pattern: ((Null | GreaterP[0*Second]) | Automatic) | Null

Index Matches to: Sample

Instrument

The robotic instrument that is used to transfer cells in suspension to a solid agar gel and then streak the suspension across the plate.

Default Value: Automatic

Pattern Description: An object of type or subtype Model[Instrument, ColonyHandler] or Object[Instrument, ColonyHandler]

Programmatic Pattern: ObjectP[{Model[Instrument, ColonyHandler], Object[Instrument, ColonyHandler]}] | Automatic

WashCells

washCellsRules

Programmatic Pattern: ((Null | ObjectP[{Model[Instrument, Centrifuge], Object[Instrument, Centrifuge]}]) | Automatic) | Null

Index Matches to: Sample

RoboticInstrument

The instrument that transfers the sample and buffers between containers to execute the protocol.

Default Value: Automatic

Default Calculation: Automatically set to Model[Instrument, LiquidHandler, "bioSTAR"] if CellType is Mamalian. Otherwise, set to Model[Instrument, LiquidHandler, "microbioSTAR"].

Pattern Description: An object of type or subtype Model[Instrument, LiquidHandler] or Object[Instrument, LiquidHandler]

Programmatic Pattern: ObjectP[{Model[Instrument, LiquidHandler], Object[Instrument, LiquidHandler]}] | Automatic

Preparation

Default Value: Robotic

Pattern Description: Robotic.

Programmatic Pattern: Robotic

Programmatic Pattern: (Null | (Alternatives[SampleStorageTypeP | Disposal])) | Null

Index Matches to: Sample

MeasureWeight

Default Value: False

Pattern Description: True or False or Null.

Programmatic Pattern: (Null | BooleanP) | Null

MeasureVolume

Default Value: False

Pattern Description: True or False or Null.

Programmatic Pattern: (Null | BooleanP) | Null

ImageSample

Default Value: False

Pattern Description: True or False or Null.

Programmatic Pattern: (Null | BooleanP) | Null

LabelSample

Options

The options that specify the model, amount, and container of this sample.

Pattern: {_Rule..}

General

Label

The label of the samples that are to be prepared.

Default Value: Null

Pattern Description: A string or Null.

Programmatic Pattern: _String

Index Matches to: Label

The label to assign to the container that is used for the sample.

Default Value: Null

Pattern Description: A string or Null.

Programmatic Pattern: (Null | _String) | Null

Index Matches to: Label

Amount

The requested amount of the Model[Sample] to put in the specified Container.

Default Value: Automatic

Default Calculation: Automatically set based on the usage of the sample label in other primitives.

Pattern Description: Count or Mass or Volume or Null.

Index Matches to: Label

ExactAmount

Indicates that an Object[Sample] with the exact Amount specified (+/- Tolerance) should be picked in the lab. If set to False, existing samples with an amount greater than or equal to the amount requested can be used. ExactAmount should be set to True if you are depending on the sample having an exact volume/mass/count in the lab. However, if you're just transferring out of this sample and don't care about its exact volume, setting ExactAmount->False will save time in the lab (the exact amount doesn't need to first be aliquotted out).

Default Value: Automatic

Default Calculation: Automatically set to True if the sample has FixedAmounts or if the user has manually specified the Amount option.

Pattern Description: True or False or Null.

Programmatic Pattern: ((Null | BooleanP) | Automatic) | Null

Index Matches to: Label

Tolerance

The allowed tolerance when preparing the specified Amount of sample. This option can only be set if ExactAmount is set to True.

Default Value: Automatic

Default Calculation: Automatically set to 1% of the requested Amount if ExactAmount is set to True.

Pattern Description: Count or Mass or Percent Tolerance or Volume or Null.

Index Matches to: Label

Density

Indicates the known density of the sample being labeled at room temperature. By setting upfront, this allows ECL to skip measuring the density later.

Default Value: Null

Pattern Description: Greater than 0 grams per milliliter or Null.

Programmatic Pattern: (Null | GreaterP[(0*Gram)/Milliliter]) | Null

Index Matches to: Label

Preparation

Options

The options that specify the model of this container.

Pattern: {_Rule..}

General

Label

The label of the samples that are to be prepared.

Default Value: Null

Pattern Description: A string or Null.

Programmatic Pattern: _String

Index Matches to: Label

Restricted

Indicates whether the container should be restricted from automatic use is any of your team's experiments that request the container's models. (Restricted can only be used in experiments when specifically provided as input to the experiment functions by a team member). Setting the option to Null means the sample should be untouched. Setting the option to True or False will set the Restricted field of the sample to that value respectively.

Default Value: Null

Pattern Description: True or False or Null.

Programmatic Pattern: (Null | BooleanP) | Null

Index Matches to: Label

Container

The container object that will be labeled for future use.

Default Value: Null

Pattern Description: An object of type or subtype Object[Container] or Model[Container] or a prepared sample or Null.

Programmatic Pattern: (Null | (ObjectP[{Object[Container], Model[Container]}] | _String)) | Null

Index Matches to: Label

Preparation

Default Value: Automatic

Pattern Description: Manual or Robotic.

Programmatic Pattern: PreparationMethodP | Automatic

Wait

duration

The amount of time to pause during execution of primitives.

Pattern: GreaterP[0*Second]

General

Duration

The amount of time to pause before continuing the execution of future unit operations.

Default Value: Null

Pattern Description: Greater than 0 seconds or Null.

Programmatic Pattern: GreaterP[0*Second]

Transfer

transferRules

Indicates whether the destination should be restricted from automatic use is any of your team's experiments that request the sample's models. (Restricted samples can only be used in experiments when specifically provided as input to the experiment functions by a team member.)

Default Value: Automatic

Pattern Description: True or False.

Programmatic Pattern: BooleanP | Automatic

Index Matches to: Source

DestinationWell

The position in the destination container in which the source sample will be placed.

Default Value: Automatic

Default Calculation: Automatically set to the position of the given Object[Sample]. Otherwise, is set to the first empty well of the container. Otherwise, is set to "A1".

Pattern Description: Any valid container position or any well from A1 to H12.

Programmatic Pattern: (WellPositionP | LocationPositionP) | Automatic

Index Matches to: Source

MultichannelTransfer

Indicates if this transfer will occur simultaneously with the other transfer that occur before/after it, up to the number of channels that are available in the pipette chosen via the Instrument option.

Default Value: Automatic

Default Calculation: Automatically set to True if (1) the samples are in a plate, (2) the samples to be transferred before/after this sample are in the same row or well of the plate, (3) the volume of the samples to be transferred is the same, and (4) the spacing of the wells in the plate are compatible with the spacing between the channels in the pipette (HorizontalPitch/VerticalPitch/ChannelOffset).

Pattern Description: True or False or Null.

Programmatic Pattern: ((Null | BooleanP) | Automatic) | Null

Index Matches to: Source

Preparation

Default Value: Automatic

Pattern Description: Manual or Robotic.

Programmatic Pattern: PreparationMethodP | Automatic

WorkCell

Indicates the work cell that this primitive will be run on if Preparation->Robotic.

Default Value: Automatic

Default Calculation: Automatically set to STAR if Preparation->Robotic.

Pattern Description: STAR, bioSTAR, or microbioSTAR or Null.

Programmatic Pattern: ((STAR | bioSTAR | microbioSTAR) | Automatic) | Null

TemperatureConditions

CoolingTime

Specifies the length of time that should elapse after the transfer before the sample is removed from the TransferEnvironment. This is a lower bound, which will govern the final transfer, and so any given sample in a batch may cool for longer than the CoolingTime.

Default Value: Automatic

Default Calculation: Resolves to 10 minutes when the SourceTemperature is not Ambient.

Pattern Description: Greater than or equal to 0 minutes and less than or equal to 72 hours or Null.

Programmatic Pattern: ((Null | RangeP[0*Minute, $MaxExperimentTime]) | Automatic) | Null

Index Matches to: Source

SolidificationTime

In a media transfer, the duration of time after transferring the liquid media into incubation plates that they are held at ambient temperature for the media containing gelling agents to solidify before allowing them to be used for experiments.

Default Value: Null

Pattern Description: Greater than or equal to 0 minutes and less than or equal to 1 day or None or Null.

Programmatic Pattern: (Null | (RangeP[0*Minute, 1*Day] | None)) | Null

Index Matches to: Source

Temperature Conditions

SourceTemperature

Indicates the temperature at which the source sample will be at during the transfer. When samples are transferred off of the operator cart and into the TransferEnvironment, they are placed in a portable heater/cooler to get the sample to temperature right before the transfer occurs. Note that this is different than the TransportCondition of the sample. Samples transferred in a biosafety cabinet can have SourceTemperature specified as Cold (approximately 4 Celsius), Ambient, or a specific temperature above 25 Celsius.

Default Value: Automatic

Default Calculation: Automatically set to the TransferTemperature or TransportTemperature (whichever is first filled out) of the source sample. Otherwise, is transferred at Ambient temperature.

Pattern Description: Ambient or Cold or greater than or equal to -20 degrees Celsius and less than or equal to 90 degrees Celsius or Null.

Index Matches to: Source

SourceEquilibrationTime

The duration of time for which the samples will be heated/cooled to the target SourceTemperature.

Default Value: Automatic

Default Calculation: Automatically set to 5 Minute if SourceTemperature is not set to Ambient.

Pattern Description: Greater than or equal to 0 minutes and less than or equal to 72 hours or Null.

Programmatic Pattern: ((Null | RangeP[0*Minute, $MaxExperimentTime]) | Automatic) | Null

Index Matches to: Source

MaxSourceEquilibrationTime

The maximum duration of time for which the samples will be heated/cooled to the target SourceTemperature, if they do not reach the SourceTemperature after SourceEquilibrationTime. MaxSourceEquilibrationTime will only be used if SourceEquilibrationCheck is set, in order to extend the equilibration time past the initial SourceEquilibrationTime if SourceTemperature has not been reached. Performing an equilibration check will require stopping the experiment and verifying the temperature before moving on; this may add experiment time and may result in loss of sample through evaporation, and is only recommended for use in cases where temperature precision or temperature data is required.

Default Value: Automatic

Default Calculation: Automatically set to 30 Minute if SourceEquilibrationCheck is set.

Pattern Description: Greater than or equal to 0 minutes and less than or equal to 72 hours or Null.

Programmatic Pattern: ((Null | RangeP[0*Minute, $MaxExperimentTime]) | Automatic) | Null

Index Matches to: Source

SourceEquilibrationCheck

The method by which to verify the temperature of the source before the transfer is performed. Performing an equilibration check will require stopping the experiment and verifying the temperature before moving on; this may add experiment time and may result in loss of sample through evaporation, and is only recommended for use in cases where temperature precision or temperature data is required.

Default Value: Automatic

Default Calculation: Automatically set to Null.

Pattern Description: ImmersionThermometer or IRThermometer or Null.

Programmatic Pattern: ((Null | EquilibrationCheckP) | Automatic) | Null

Index Matches to: Source

DestinationTemperature

Indicates the temperature at which the destination will be at during the transfer. When samples are transferred off of the operator cart and into the TransferEnvironment, they are placed in a portable heater/cooler to get the sample to temperature right before the transfer occurs. Note that this is different than the TransportCondition of the sample. Samples transferred in a biosafety cabinet can have DestinationTemperature specified as Cold (approximately 4 Celsius), Ambient, or a specific temperature above 25 Celsius.

Default Value: Automatic

Default Calculation: Automatically set to the TransferTemperature or TransportTemperature (whichever is first filled out) of the destination sample. Otherwise, is transferred at Ambient temperature.

Pattern Description: Ambient or Cold or greater than or equal to -20 degrees Celsius and less than or equal to 90 degrees Celsius or Null.

Index Matches to: Source

DestinationEquilibrationTime

The duration of time for which the samples will be heated/cooled to the target DestinationTemperature.

Default Value: Automatic

Default Calculation: Automatically set to 5 Minute if DestinationTemperature is not set to Ambient.

Pattern Description: Greater than or equal to 0 minutes and less than or equal to 72 hours or Null.

Programmatic Pattern: ((Null | RangeP[0*Minute, $MaxExperimentTime]) | Automatic) | Null

Index Matches to: Source

MaxDestinationEquilibrationTime

The maximum duration of time for which the samples will be heated/cooled to the target DestinationTemperature, if they do not reach the DestinationTemperature after DestinationEquilibrationTime. MaxDestinationEquilibrationTime will only be used if DestinationEquilibrationCheck is set, in order to extend the equilibration time past the initial DestinationEquilibrationTime if DestinationTemperature has not been reached. Performing an equilibration check will require stopping the experiment and verifying the temperature before moving on; this may add experiment time and may result in loss of sample through evaporation, and is only recommended for use in cases where temperature precision or temperature data is required.

Default Value: Automatic

Default Calculation: Automatically set to 30 Minute if DestinationEquilibrationCheck is set.

Pattern Description: Greater than or equal to 0 minutes and less than or equal to 72 hours or Null.

Programmatic Pattern: ((Null | RangeP[0*Minute, $MaxExperimentTime]) | Automatic) | Null

Index Matches to: Source

DestinationEquilibrationCheck

The method by which to verify the temperature of the destination before the transfer is performed. Performing an equilibration check will require stopping the experiment and verifying the temperature before moving on; this may add experiment time and may result in loss of sample through evaporation, and is only recommended for use in cases where temperature precision or temperature data is required.

IntermediateDecant

Indicates if the source will need to be decanted into an intermediate container in order for the precise amount requested to be transferred via pipette. Intermediate decants are necessary if the container geometry prevents the Instrument from reaching the liquid level of the sample in the container (plus the delta of volume that is to be transferred). The container geometry is automatically calculated from the inverse of the volume calibration function when the container is parameterized upon receiving. This option will be set to Null if Preparation->Robotic.

Default Value: Automatic

Default Calculation: Automatically set to True if the source is in a container that in a container that is pipette-inaccessible and the Instrument set to perform the transfer is a pipette.

Pattern Description: True or False or Null.

Programmatic Pattern: ((Null | BooleanP) | Automatic) | Null

Index Matches to: Source

IntermediateContainer

The container that the source will be decanted into in order to make the final transfer via pipette into the final destination.

General

Sample

The samples that should be incubated.

Default Value: Null

Pattern Description: Container with Well Position or Sample or Container or Null.

Programmatic Pattern: (ObjectP[{Object[Sample], Object[Container]}] | _String) | {Alternatives @@ Flatten[AllWells[NumberOfWells -> 384]] | LocationPositionP, ObjectP[{Object[Container]}] | _String}

Index Matches to: Sample

SampleLabel

A user defined word or phrase used to identify the samples that are being incubated, for use in downstream unit operations.

Default Value: Automatic

Pattern Description: A string.

Programmatic Pattern: _String | Automatic

Index Matches to: Sample

During light exposure experiments, a set of samples that are placed in an opaque box to receive identical incubation conditions without exposure to light. This option can only be set if incubating other samples in an environmental stability chamber with light exposure.

Default Value: Null

Pattern Description: List of one or more an object of type or subtype Object[Sample] or Object[Container] or a prepared sample entries or Null.

Programmatic Pattern: {(ObjectP[{Object[Sample], Object[Container]}] | _String)..} | Null

WorkCell

Indicates the work cell that this primitive will be run on if Preparation->Robotic.

Default Value: Automatic

Default Calculation: Automatically set to STAR if Preparation->Robotic.

Pattern Description: STAR, bioSTAR, or microbioSTAR or Null.

Programmatic Pattern: ((STAR | bioSTAR | microbioSTAR) | Automatic) | Null

Preparation

Programmatic Pattern: ((Null | {{RangeP[0*Minute, $MaxExperimentTime], RangeP[$MinMixRate, $MaxMixRate] | RangeP[0*GravitationalAcceleration, 100*GravitationalAcceleration]}..}) | Automatic) | Null

Index Matches to: Sample

NumberOfMixes

The number of times the samples are mixed if MixType of Pipette or Invert is chosen.

Default Value: Automatic

Default Calculation: If MaxNumberOfMixes is specified, automatically set to 1/3 of MaxNumberOfMixes (round to integer); else if MixUntilDissolved->True, automatically set to 25; otherwise set to 15.

Pattern Description: Greater than or equal to 1 and less than or equal to 50 in increments of 1 or Null.

Programmatic Pattern: ((Null | RangeP[1, 50, 1]) | Automatic) | Null

Index Matches to: Sample

MaxNumberOfMixes

The maximum number of times for which the samples are mixed, in an attempt to dissolve any solute, if the MixUntilDissolved option is chosen. Note this option only applies for mix type: Pipette or Invert.

Default Value: Automatic

Default Calculation: When MixUntilDissolved->True, automatically set to 2*NumberOfMixes if it is Numeric (specified or automatically set); if not, set to 50.

Pattern Description: Greater than or equal to 1 and less than or equal to 250 in increments of 1 or Null.

Programmatic Pattern: ((Null | RangeP[1, 250, 1]) | Automatic) | Null

Index Matches to: Sample

MixVolume

The volume of the sample that is pipetted up and down to mix if MixType->Pipette.

Default Value: Automatic

Default Calculation: For robotic preparation, automatically set to 970 Microliter or sample volume informed by the field Volume of the sample, whichever is smaller. For manual preparation, automatically set to 50 Milliliter or half of the sample volume informed by the field Volume of the sample, whichever is smaller.

Pattern Description: Greater than or equal to 0.5 microliters and less than or equal to 50 milliliters or Null.

Programmatic Pattern: ((Null | RangeP[0.5*Microliter, 50*Milliliter]) | Automatic) | Null

Index Matches to: Sample

Temperature

The temperature of the device that is used to mix/incubate the sample. If mixing via homogenization, the pulse duty cycle of the sonication horn is automatically adjusted if the measured temperature of the sample exceeds this set temperature.

Default Value: Automatic

Default Calculation: Automatically set to 40 Celsius if AnnealingTime is specified, if not, set to Ambient.

Pattern Description: Ambient or greater than or equal to -20 degrees Celsius and less than or equal to 500 degrees Celsius or Null.

Programmatic Pattern: ((Null | (RangeP[$MinIncubationTemperature, $MaxIncubationTemperature] | Ambient)) | Automatic) | Null

Index Matches to: Sample

TemperatureProfile

The temperature of the device, over the course of time, that is used to mix/incubate the sample.

Default Value: Automatic

Pattern Description: List of one or more {Time, Temperature} entries or Null.

Programmatic Pattern: ((Null | {{RangeP[0*Minute, $MaxExperimentTime], RangeP[$MinTemperatureProfileTemperature, $MaxTemperatureProfileTemperature]}..}) | Automatic) | Null

Index Matches to: Sample

MaxTemperature

The maximum temperature that the sample is allowed to reach during mixing via homogenization or sonication. If the measured temperature is above this MaxTemperature, the homogenizer/sonicator turns off until the measured temperature is 2C below the MaxTemperature, then it automatically resumes.

Default Value: Automatic

Pattern Description: Greater than or equal to 0 degrees Celsius and less than or equal to 100 degrees Celsius or Null.

Programmatic Pattern: ((Null | RangeP[0*Celsius, 100*Celsius]) | Automatic) | Null

Index Matches to: Sample

OscillationAngle

The angle of oscillation of the mixing motion when a wrist action shaker is used.

Default Value: Automatic

Pattern Description: Greater than or equal to 0 degrees and less than or equal to 15 degrees or Null.

Programmatic Pattern: ((Null | RangeP[0*AngularDegree, 15*AngularDegree]) | Automatic) | Null

Index Matches to: Sample

The angle that the sample's container is tilted during the mixing of the sample. The container is pivoted on its left edge when tilting occurs. This option can only be provided if Preparation->Robotic.

Default Value: Null

Pattern Description: Greater than or equal to 0 degrees and less than or equal to 10 degrees in increments of 1 degree or Null.

Programmatic Pattern: (Null | RangeP[0*AngularDegree, 10*AngularDegree, 1*AngularDegree]) | Null

Index Matches to: Sample

CorrectionCurve

The relationship between a target volume and the corrected volume that needs to be aspirated or dispensed to reach the target volume. This option can only be set if Preparation->Robotic.

Default Value: Automatic

Default Calculation: Automatically set to correction curve set in the PipettingMethod for the Object[Sample] if MixType->Pipette and Preparation->Robotic.

Pattern Description: List of one or more {Target Volume, Actual Volume} entries or Null.

Programmatic Pattern: ((Null | {{RangeP[0*Microliter, 1000*Microliter], RangeP[0*Microliter, 1250*Microliter]}..}) | Automatic) | Null

Index Matches to: Sample

Tips

The pipette tips used to aspirate and dispense the requested volume..

Default Value: Automatic

Default Calculation: If MixType->Pipette, automatically set to the preferred tips determined by TransferDevices with given MixVolume, as well as TipType and TipMaterial if specified, and it is also checked that the tips can reach the bottom of the container.

Pattern Description: An object of type or subtype Model[Item, Tips] or Object[Item, Tips] or Null.

Programmatic Pattern: ((Null | ObjectP[{Model[Item, Tips], Object[Item, Tips]}]) | Automatic) | Null

Index Matches to: Sample

TipType

The tip type to use to mix liquid in the manipulation.

Default Value: Automatic

Default Calculation: If Tips is specified, automatically set to the field TipType of the Model[Item, Tips] or the Model of Object[Item,Tips]. Otherwise, set to Null.

Pattern Description: Normal, Barrier, WideBore, GelLoading, or Aspirator or Null.

Programmatic Pattern: ((Null | TipTypeP) | Automatic) | Null

Index Matches to: Sample

The desired position in the corresponding AliquotContainer in which the aliquot samples will be placed.

Default Value: Automatic

Default Calculation: Automatically resolves to A1 in containers with only one position. For plates, fills wells in the order provided by the function AllWells.

Pattern Description: Any well from A1 to H12 or Null.

Programmatic Pattern: ((Null | WellPositionP) | Automatic) | Null

Index Matches to: Sample

CentrifugeAliquot

The amount of each sample that should be transferred from the SamplesIn into the CentrifugeAliquotContainer when performing an aliquot before centrifugation.

Default Value: Automatic

Filtration

Default Value: Automatic

Default Calculation: Resolves to True if any of the corresponding Filter options are set. Otherwise, resolves to False.

Pattern Description: True or False.

Programmatic Pattern: BooleanP | Automatic

Index Matches to: Sample

FiltrationType

The type of filtration method that should be used to perform the filtration.

Default Value: Automatic

Default Calculation: Will automatically resolve to a filtration type appropriate for the volume of sample being filtered.

Pattern Description: PeristalticPump, Centrifuge, Vacuum, Syringe, or AirPressure or Null.

Programmatic Pattern: ((Null | FiltrationTypeP) | Automatic) | Null

Index Matches to: Sample

FilterInstrument

The instrument that should be used to perform the filtration.

Default Value: Automatic

Default Calculation: Will automatically resolved to an instrument appropriate for the filtration type.

Index Matches to: Sample

Filter

The filter that should be used to remove impurities from the SamplesIn prior to starting the experiment.

Default Value: Automatic

Default Calculation: Will automatically resolve to a filter appropriate for the filtration type and instrument.

Pattern Description: An object of type or subtype Model[Container, Plate, Filter], Model[Container, Vessel, Filter], or Model[Item, Filter] or Null.

Programmatic Pattern: ((Null | ObjectP[{Model[Container, Plate, Filter], Model[Container, Vessel, Filter], Model[Item, Filter]}]) | Automatic) | Null

Index Matches to: Sample

FilterMaterial

The membrane material of the filter that should be used to remove impurities from the SamplesIn prior to starting the experiment.

Default Value: Automatic

Default Calculation: Resolves to an appropriate filter material for the given sample is Filtration is set to True.

Programmatic Pattern: ((Null | FilterMembraneMaterialP) | Automatic) | Null

Index Matches to: Sample

PrefilterMaterial

The material from which the prefilter filtration membrane should be made of to remove impurities from the SamplesIn prior to starting the experiment.

Default Value: Automatic

Default Calculation: By default, no prefiltration is performed on samples, even when Filter->True.

Programmatic Pattern: ((Null | FilterMembraneMaterialP) | Automatic) | Null

Index Matches to: Sample

FilterPoreSize

The pore size of the filter that should be used when removing impurities from the SamplesIn prior to starting the experiment.

Default Value: Automatic

Default Calculation: Resolves to an appropriate filter pore size for the given sample is Filtration is set to True.

Programmatic Pattern: ((Null | FilterSizeP) | Automatic) | Null

Index Matches to: Sample

The desired container filtered samples should be produced in or transferred into by the end of filtration, with indices indicating grouping of samples in the same plates, if desired.

Default Value: Automatic

Default Calculation: Automatically set as the PreferredContainer for the Volume of the sample. For plates, attempts to fill all wells of a single plate with the same model before using another one.

Pattern Description: An object of type or subtype Model[Container] or Object[Container] or a prepared sample or {Index, Container} or Null.

Index Matches to: Sample

FilterAliquotDestinationWell

The desired position in the corresponding AliquotContainer in which the aliquot samples will be placed.

Default Value: Automatic

Default Calculation: Automatically resolves to A1 in containers with only one position. For plates, fills wells in the order provided by the function AllWells.

Pattern Description: Any well from A1 to H12 or Null.

Programmatic Pattern: ((Null | WellPositionP) | Automatic) | Null

Index Matches to: Sample

FilterAliquot

The amount of each sample that should be transferred from the SamplesIn into the FilterAliquotContainer when performing an aliquot before filtration.

Default Value: Automatic

Default Calculation: Automatically set as the smaller between the current sample volume and the maximum volume of the destination container.

Pattern Description: All or greater than or equal to 1 microliter and less than or equal to 20 liters or Null.

Programmatic Pattern: ((Null | (RangeP[1*Microliter, 20*Liter] | All)) | Automatic) | Null

Index Matches to: Sample

FilterSterile

Indicates if the filtration of the samples should be done in a sterile environment.

Default Value: Automatic

Default Value: Automatic

Programmatic Pattern: ((Null | ObjectP[IdentityModelTypes]) | Automatic) | Null

Index Matches to: Sample

AssayVolume

The desired total volume of the aliquoted sample plus dilution buffer.

Default Value: Automatic

Default Calculation: Automatically determined based on Volume and TargetConcentration option values.

Pattern Description: Greater than or equal to 1 microliter and less than or equal to 20 liters or Null.

Programmatic Pattern: ((Null | RangeP[1*Microliter, 20*Liter]) | Automatic) | Null

Index Matches to: Sample

The buffer that should be added to any aliquots requiring dilution, where the volume of this buffer added is the difference between the AliquotAmount and the total AssayVolume.

Default Value: Automatic

Default Calculation: Automatically resolves to Model[Sample, "Milli-Q water"] if ConcentratedBuffer is not specified; otherwise, resolves to Null.

Pattern Description: An object of type or subtype Model[Sample] or Object[Sample] or a prepared sample or Null.

Programmatic Pattern: ((Null | (ObjectP[{Model[Sample], Object[Sample]}] | _String)) | Automatic) | Null

Index Matches to: Sample

Indicates if identical aliquots should be prepared in the same container/position.

Sample

The sample to be mixed.

General

Sample

The samples that should be mixed.

Default Value: Null

Pattern Description: Container with Well Position or Sample or Container or Null.

Programmatic Pattern: (ObjectP[{Object[Sample], Object[Container]}] | _String) | {Alternatives @@ Flatten[AllWells[NumberOfWells -> 384]] | LocationPositionP, ObjectP[{Object[Container]}] | _String}

Index Matches to: Sample

SampleLabel

A user defined word or phrase used to identify the samples that are being incubated, for use in downstream unit operations.

Default Value: Automatic

Pattern Description: A string.

Programmatic Pattern: _String | Automatic

Index Matches to: Sample

SampleContainerLabel

A user defined word or phrase used to identify the containers of the samples that are being incubated, for use in downstream unit operations.

Default Value: Automatic

Pattern Description: A string.

Programmatic Pattern: _String | Automatic

Index Matches to: Sample

RelativeHumidity

The amount of water vapor present in air that the samples are exposed to during incubation, relative to the amount needed for saturation.

Default Value: Automatic

Default Calculation: Automatically set to 70 Percent if using an environmental chamber with relative humidity control.

Pattern Description: Greater than or equal to 0 percent and less than or equal to 100 percent in increments of 1 percent or Null.

Programmatic Pattern: ((Null | RangeP[0*Percent, 100*Percent, 1*Percent]) | Automatic) | Null

Index Matches to: Sample

LightExposure

The range of wavelengths of light that the incubated samples are exposed to. Only available when incubating the samples in an environmental chamber with UVLight and VisibleLight control.

Default Value: Automatic

Pattern Description: UVLight or VisibleLight or Null.

Programmatic Pattern: ((Null | EnvironmentalChamberLightTypeP) | Automatic) | Null

Index Matches to: Sample

LightExposureIntensity

Default Value: Automatic

Default Calculation: Automatically set to 19 Watt/Meter^2 if LightExposure is set to UVLight and 14500 Lumen/Meter^2 if LightExposure is set to VisibleLight. Otherwise, set to Null.

Pattern Description: UV Light Intensity or Visible Light Intensity or Null.

Programmatic Pattern: ((Null | (RangeP[2*(Watt/Meter^2), 36*(Watt/Meter^2)] | RangeP[2*(Lumen/Meter^2), 29000*(Lumen/Meter^2)])) | Automatic) | Null

Index Matches to: Sample

TotalLightExposure

Default Value: Automatic

Default Calculation: Automatically calculated by LightExposureIntensity*Time.

Pattern Description: UV Light Exposure or Visible Light Exposure or Null.

Programmatic Pattern: ((Null | (GreaterP[0*Watt*(Hour/Meter^2)] | GreaterP[0*Lumen*(Hour/Meter^2)])) | Automatic) | Null

Index Matches to: Sample

LightExposureStandard

Default Value: Null

Pattern Description: List of one or more an object of type or subtype Object[Sample] or Object[Container] or a prepared sample entries or Null.

Programmatic Pattern: {(ObjectP[{Object[Sample], Object[Container]}] | _String)..} | Null

WorkCell

Indicates the work cell that this primitive will be run on if Preparation->Robotic.

Default Value: Automatic

Default Calculation: Automatically set to STAR if Preparation->Robotic.

Pattern Description: STAR, bioSTAR, or microbioSTAR or Null.

Programmatic Pattern: ((STAR | bioSTAR | microbioSTAR) | Automatic) | Null

Preparation

Programmatic Pattern: ((Null | MixTypeP) | Automatic) | Null

Index Matches to: Sample

MixUntilDissolved

Indicates if the mix should be continued up to the MaxTime or MaxNumberOfMixes (chosen according to the mix Type), in an attempt dissolve any solute.

The frequency of rotation used by the mixing instrument to mix the samples.

Default Value: Automatic

Default Calculation: Automatically set to 300 RPM for robotic preparation. For manual preparation, MixRate is set to the average of MinRotationRate and MaxRotationRate of the instrument.

Pattern Description: Gravitational Acceleration (Acoustic Shaker Only) or RPM or Null.

Programmatic Pattern: ((Null | (RangeP[$MinMixRate, $MaxMixRate] | RangeP[0*GravitationalAcceleration, 100*GravitationalAcceleration])) | Automatic) | Null

Index Matches to: Sample

MixRateProfile

The frequency of rotation of the mixing instrument used to mix the samples, over the course of time.

Default Value: Automatic

Pattern Description: List of one or more {Time, MixRate} entries or Null.

Programmatic Pattern: ((Null | {{RangeP[0*Minute, $MaxExperimentTime], RangeP[$MinMixRate, $MaxMixRate] | RangeP[0*GravitationalAcceleration, 100*GravitationalAcceleration]}..}) | Automatic) | Null

Index Matches to: Sample

NumberOfMixes

The number of times the samples are mixed if MixType of Pipette or Invert is chosen.

Default Value: Automatic

Default Calculation: If MaxNumberOfMixes is specified, automatically set to 1/3 of MaxNumberOfMixes (round to integer); else if MixUntilDissolved->True, automatically set to 25; otherwise set to 15.

Pattern Description: Greater than or equal to 1 and less than or equal to 50 in increments of 1 or Null.

Programmatic Pattern: ((Null | RangeP[1, 50, 1]) | Automatic) | Null

Index Matches to: Sample

MaxNumberOfMixes

Default Value: Automatic

Default Calculation: When MixUntilDissolved->True, automatically set to 2*NumberOfMixes if it is Numeric (specified or automatically set); if not, set to 50.

Pattern Description: Greater than or equal to 1 and less than or equal to 250 in increments of 1 or Null.

Programmatic Pattern: ((Null | RangeP[1, 250, 1]) | Automatic) | Null

Index Matches to: Sample

MixVolume

The volume of the sample that is pipetted up and down to mix if MixType->Pipette.

Default Value: Automatic

Pattern Description: Greater than or equal to 0.5 microliters and less than or equal to 50 milliliters or Null.

Programmatic Pattern: ((Null | RangeP[0.5*Microliter, 50*Milliliter]) | Automatic) | Null

Index Matches to: Sample

Temperature

Default Value: Automatic

Default Calculation: Automatically set to 40 Celsius if AnnealingTime is specified, if not, set to Ambient.

Pattern Description: Ambient or greater than or equal to -20 degrees Celsius and less than or equal to 500 degrees Celsius or Null.

Programmatic Pattern: ((Null | (RangeP[$MinIncubationTemperature, $MaxIncubationTemperature] | Ambient)) | Automatic) | Null

Index Matches to: Sample

TemperatureProfile

The temperature of the device, over the course of time, that is used to mix/incubate the sample.

Default Value: Automatic

Pattern Description: List of one or more {Time, Temperature} entries or Null.

Programmatic Pattern: ((Null | {{RangeP[0*Minute, $MaxExperimentTime], RangeP[$MinTemperatureProfileTemperature, $MaxTemperatureProfileTemperature]}..}) | Automatic) | Null

Index Matches to: Sample

MaxTemperature

Default Value: Automatic

Pattern Description: Greater than or equal to 0 degrees Celsius and less than or equal to 100 degrees Celsius or Null.

Programmatic Pattern: ((Null | RangeP[0*Celsius, 100*Celsius]) | Automatic) | Null

Index Matches to: Sample

OscillationAngle

The angle of oscillation of the mixing motion when a wrist action shaker is used.

Default Value: Automatic

Pattern Description: Greater than or equal to 0 degrees and less than or equal to 15 degrees or Null.

Programmatic Pattern: ((Null | RangeP[0*AngularDegree, 15*AngularDegree]) | Automatic) | Null

Default Value: Automatic

Default Calculation: Automatically set to 2 Millimeter if MixType->Pipette and Preparation->Robotic.

Pattern Description: {X,Y,Z} Coordinate Offset or Z Offset or Null.

Programmatic Pattern: ((Null | (GreaterEqualP[0*Millimeter] | Coordinate[{DistanceP, DistanceP, GreaterEqualP[0*Millimeter]}])) | Automatic) | Null

Index Matches to: Sample

MixTiltAngle

Default Value: Null

Pattern Description: Greater than or equal to 0 degrees and less than or equal to 10 degrees in increments of 1 degree or Null.

Programmatic Pattern: (Null | RangeP[0*AngularDegree, 10*AngularDegree, 1*AngularDegree]) | Null

Index Matches to: Sample

CorrectionCurve

The relationship between a target volume and the corrected volume that needs to be aspirated or dispensed to reach the target volume. This option can only be set if Preparation->Robotic.

Default Value: Automatic

Default Calculation: Automatically set to correction curve set in the PipettingMethod for the Object[Sample] if MixType->Pipette and Preparation->Robotic.

Pattern Description: List of one or more {Target Volume, Actual Volume} entries or Null.

Programmatic Pattern: ((Null | {{RangeP[0*Microliter, 1000*Microliter], RangeP[0*Microliter, 1250*Microliter]}..}) | Automatic) | Null

Index Matches to: Sample

Tips

The pipette tips used to aspirate and dispense the requested volume..

Default Value: Automatic

Pattern Description: An object of type or subtype Model[Item, Tips] or Object[Item, Tips] or Null.

Programmatic Pattern: ((Null | ObjectP[{Model[Item, Tips], Object[Item, Tips]}]) | Automatic) | Null

Index Matches to: Sample

TipType

The tip type to use to mix liquid in the manipulation.

Default Value: Automatic

Default Calculation: If Tips is specified, automatically set to the field TipType of the Model[Item, Tips] or the Model of Object[Item,Tips]. Otherwise, set to Null.

Pattern Description: Normal, Barrier, WideBore, GelLoading, or Aspirator or Null.

Programmatic Pattern: ((Null | TipTypeP) | Automatic) | Null

Index Matches to: Sample

The desired position in the corresponding AliquotContainer in which the aliquot samples will be placed.

Default Value: Automatic

Default Calculation: Automatically resolves to A1 in containers with only one position. For plates, fills wells in the order provided by the function AllWells.

Pattern Description: Any well from A1 to H12 or Null.

Programmatic Pattern: ((Null | WellPositionP) | Automatic) | Null

Index Matches to: Sample

CentrifugeAliquot

The amount of each sample that should be transferred from the SamplesIn into the CentrifugeAliquotContainer when performing an aliquot before centrifugation.

Default Value: Automatic

Filtration

Default Value: Automatic

Default Calculation: Resolves to True if any of the corresponding Filter options are set. Otherwise, resolves to False.

Pattern Description: True or False.

Programmatic Pattern: BooleanP | Automatic

Index Matches to: Sample

FiltrationType

The type of filtration method that should be used to perform the filtration.

Default Value: Automatic

Default Calculation: Will automatically resolve to a filtration type appropriate for the volume of sample being filtered.

Pattern Description: PeristalticPump, Centrifuge, Vacuum, Syringe, or AirPressure or Null.

Programmatic Pattern: ((Null | FiltrationTypeP) | Automatic) | Null

Index Matches to: Sample

FilterInstrument

The instrument that should be used to perform the filtration.

Default Value: Automatic

Default Calculation: Will automatically resolved to an instrument appropriate for the filtration type.

Index Matches to: Sample

Filter

The filter that should be used to remove impurities from the SamplesIn prior to starting the experiment.

Default Value: Automatic

Default Calculation: Will automatically resolve to a filter appropriate for the filtration type and instrument.

Pattern Description: An object of type or subtype Model[Container, Plate, Filter], Model[Container, Vessel, Filter], or Model[Item, Filter] or Null.

Programmatic Pattern: ((Null | ObjectP[{Model[Container, Plate, Filter], Model[Container, Vessel, Filter], Model[Item, Filter]}]) | Automatic) | Null

Index Matches to: Sample

FilterMaterial

The membrane material of the filter that should be used to remove impurities from the SamplesIn prior to starting the experiment.

Default Value: Automatic

Default Calculation: Resolves to an appropriate filter material for the given sample is Filtration is set to True.

Programmatic Pattern: ((Null | FilterMembraneMaterialP) | Automatic) | Null

Index Matches to: Sample

PrefilterMaterial

The material from which the prefilter filtration membrane should be made of to remove impurities from the SamplesIn prior to starting the experiment.

Default Value: Automatic

Default Calculation: By default, no prefiltration is performed on samples, even when Filter->True.

Programmatic Pattern: ((Null | FilterMembraneMaterialP) | Automatic) | Null

Index Matches to: Sample

FilterPoreSize

The pore size of the filter that should be used when removing impurities from the SamplesIn prior to starting the experiment.

Default Value: Automatic

Default Calculation: Resolves to an appropriate filter pore size for the given sample is Filtration is set to True.

Programmatic Pattern: ((Null | FilterSizeP) | Automatic) | Null

Index Matches to: Sample

The desired container filtered samples should be produced in or transferred into by the end of filtration, with indices indicating grouping of samples in the same plates, if desired.

Default Value: Automatic

Default Calculation: Automatically set as the PreferredContainer for the Volume of the sample. For plates, attempts to fill all wells of a single plate with the same model before using another one.

Pattern Description: An object of type or subtype Model[Container] or Object[Container] or a prepared sample or {Index, Container} or Null.

Index Matches to: Sample

FilterAliquotDestinationWell

The desired position in the corresponding AliquotContainer in which the aliquot samples will be placed.

Default Value: Automatic

Default Calculation: Automatically resolves to A1 in containers with only one position. For plates, fills wells in the order provided by the function AllWells.

Pattern Description: Any well from A1 to H12 or Null.

Programmatic Pattern: ((Null | WellPositionP) | Automatic) | Null

Index Matches to: Sample

FilterAliquot

The amount of each sample that should be transferred from the SamplesIn into the FilterAliquotContainer when performing an aliquot before filtration.

Default Value: Automatic

Default Calculation: Automatically set as the smaller between the current sample volume and the maximum volume of the destination container.

Pattern Description: All or greater than or equal to 1 microliter and less than or equal to 20 liters or Null.

Programmatic Pattern: ((Null | (RangeP[1*Microliter, 20*Liter] | All)) | Automatic) | Null

Index Matches to: Sample

FilterSterile

Indicates if the filtration of the samples should be done in a sterile environment.

Default Value: Automatic

Default Value: Automatic

Programmatic Pattern: ((Null | ObjectP[IdentityModelTypes]) | Automatic) | Null

Index Matches to: Sample

AssayVolume

The desired total volume of the aliquoted sample plus dilution buffer.

Default Value: Automatic

Default Calculation: Automatically determined based on Volume and TargetConcentration option values.

Pattern Description: Greater than or equal to 1 microliter and less than or equal to 20 liters or Null.

Programmatic Pattern: ((Null | RangeP[1*Microliter, 20*Liter]) | Automatic) | Null

Index Matches to: Sample

The buffer that should be added to any aliquots requiring dilution, where the volume of this buffer added is the difference between the AliquotAmount and the total AssayVolume.

Default Value: Automatic

Default Calculation: Automatically resolves to Model[Sample, "Milli-Q water"] if ConcentratedBuffer is not specified; otherwise, resolves to Null.

Pattern Description: An object of type or subtype Model[Sample] or Object[Sample] or a prepared sample or Null.

Programmatic Pattern: ((Null | (ObjectP[{Model[Sample], Object[Sample]}] | _String)) | Automatic) | Null

Index Matches to: Sample

Indicates if identical aliquots should be prepared in the same container/position.

centrifugeRules

The list of key/value pairs that specify the samples and their centrifugation parameters.

Pattern: {Sample -> ListableP[NonSelfContainedSampleP | NonSelfContainedSampleModelP | ObjectP[{Model[Container, Vessel], Model[Container, ReactionVessel], Model[Container, Cuvette], Object[Container, Vessel], Object[Container, ReactionVessel], Object[Container, Cuvette]}] | {ObjectP[{Model[Container, Plate], Object[Container, Plate]}], WellP}], Time -> ListableP[GreaterEqualP[0*Minute]], Intensity -> Automatic | Null | GreaterP[0*RPM] | GreaterP[0*GravitationalAcceleration], Temperature -> ListableP[Ambient | TemperatureP], Instrument -> ListableP[ObjectP[{Model[Instrument, Centrifuge], Model[Instrument, Centrifuge]}] | Null]}

General

Sample

The samples that should be centrifuged.

Default Value: Null

Pattern Description: Container with Well Position or Sample or Container or Null.

Programmatic Pattern: (ObjectP[{Object[Sample], Object[Container]}] | _String) | {Alternatives @@ Flatten[AllWells[NumberOfWells -> 384]] | LocationPositionP, ObjectP[{Object[Container]}] | _String}

Index Matches to: Sample

SampleLabel

A user defined word or phrase used to identify the samples that are being centrifuged, for use in downstream unit operations.

Default Value: Automatic

Pattern Description: A string.

Programmatic Pattern: _String | Automatic

Index Matches to: Sample

The amount of time for which the samples will be centrifuged.

Default Value: 5 minutes

Pattern Description: Greater than 0 minutes.

Programmatic Pattern: GreaterP[0*Minute]

Index Matches to: Sample

Temperature

The temperature at which the centrifuge chamber will be held while the samples are being centrifuged.

Default Value: Automatic

Default Calculation: Automatically set to 4 Celsius if ChilledRotor option is set to True.

Pattern Description: Ambient or greater than or equal to -10 degrees Celsius and less than or equal to 40 degrees Celsius.

Programmatic Pattern: (Ambient | RangeP[-10*Celsius, 40*Celsius]) | Automatic

Index Matches to: Sample

CollectionContainer

The container that will be stacked on the bottom of the sample's container to collect the filtrate passing through the filter container.

Default Value: Automatic

Default Calculation: Automatically set to Model[Container, Plate, "96-well 2mL Deep Well Plate"] if the sample is in a filter plate.

Pattern Description: An object of type or subtype Model[Container] or Object[Container] or a prepared sample or {Index, Container} or Null.

Programmatic Pattern: ((Null | ((ObjectP[{Model[Container], Object[Container]}] | _String) | {Alternatives[GreaterEqualP[1, 1]], (ObjectP[{Model[Container], Object[Container]}] | _String) | Automatic})) | Automatic) | Null

Index Matches to: Sample

Preparation

Default Value: Automatic

Pattern Description: Manual or Robotic.

Programmatic Pattern: PreparationMethodP | Automatic

WorkCell

Indicates the work cell that this primitive will be run on if Preparation->Robotic.

Default Value: Automatic

Default Calculation: Automatically set to STAR if Preparation->Robotic.

Pattern Description: STAR, bioSTAR, or microbioSTAR or Null.

Programmatic Pattern: ((STAR | bioSTAR | microbioSTAR) | Automatic) | Null

Index Matches to: Sample

MixType

Indicates the style of motion used to mix the sample, prior to starting the experiment.

The instrument that should be used to perform the filtration.

Default Value: Automatic

Default Calculation: Will automatically resolved to an instrument appropriate for the filtration type.

Index Matches to: Sample

Filter

The filter that should be used to remove impurities from the SamplesIn prior to starting the experiment.

Default Value: Automatic

Default Calculation: Will automatically resolve to a filter appropriate for the filtration type and instrument.

Pattern Description: An object of type or subtype Model[Container, Plate, Filter], Model[Container, Vessel, Filter], or Model[Item, Filter] or Null.

Programmatic Pattern: ((Null | ObjectP[{Model[Container, Plate, Filter], Model[Container, Vessel, Filter], Model[Item, Filter]}]) | Automatic) | Null

Index Matches to: Sample

FilterMaterial

The membrane material of the filter that should be used to remove impurities from the SamplesIn prior to starting the experiment.

Default Value: Automatic

Default Calculation: Resolves to an appropriate filter material for the given sample is Filtration is set to True.

Programmatic Pattern: ((Null | FilterMembraneMaterialP) | Automatic) | Null

Index Matches to: Sample

PrefilterMaterial

The material from which the prefilter filtration membrane should be made of to remove impurities from the SamplesIn prior to starting the experiment.

Default Value: Automatic

Default Calculation: By default, no prefiltration is performed on samples, even when Filter->True.

Programmatic Pattern: ((Null | FilterMembraneMaterialP) | Automatic) | Null

Index Matches to: Sample

FilterPoreSize

The pore size of the filter that should be used when removing impurities from the SamplesIn prior to starting the experiment.

Default Value: Automatic

Default Calculation: Resolves to an appropriate filter pore size for the given sample is Filtration is set to True.

Programmatic Pattern: ((Null | FilterSizeP) | Automatic) | Null

Index Matches to: Sample

The desired container filtered samples should be produced in or transferred into by the end of filtration, with indices indicating grouping of samples in the same plates, if desired.

Default Value: Automatic

Default Calculation: Automatically set as the PreferredContainer for the Volume of the sample. For plates, attempts to fill all wells of a single plate with the same model before using another one.

Pattern Description: An object of type or subtype Model[Container] or Object[Container] or a prepared sample or {Index, Container} or Null.

Index Matches to: Sample

FilterAliquotDestinationWell

The desired position in the corresponding AliquotContainer in which the aliquot samples will be placed.

Default Value: Automatic

Default Calculation: Automatically resolves to A1 in containers with only one position. For plates, fills wells in the order provided by the function AllWells.

Pattern Description: Any well from A1 to H12 or Null.

Programmatic Pattern: ((Null | WellPositionP) | Automatic) | Null

Index Matches to: Sample

Default Value: Automatic

Pattern Description: All or Count or Count or Mass or Volume or Null.

Index Matches to: Sample

TargetConcentration

Default Value: Automatic

Default Calculation: Automatically calculated based on aliquot and buffer volumes.

Pattern Description: Greater than 0 molar or greater than 0 grams per liter or Null.

Programmatic Pattern: ((Null | (GreaterP[0*Molar] | GreaterP[0*(Gram/Liter)])) | Automatic) | Null

Index Matches to: Sample

TargetConcentrationAnalyte

The substance whose final concentration is attained with the TargetConcentration option.

Default Value: Automatic

Programmatic Pattern: ((Null | ObjectP[IdentityModelTypes]) | Automatic) | Null

Index Matches to: Sample

AssayVolume

The desired total volume of the aliquoted sample plus dilution buffer.

Default Value: Automatic

Default Calculation: Automatically determined based on Volume and TargetConcentration option values.

Pattern Description: Greater than or equal to 1 microliter and less than or equal to 20 liters or Null.

Programmatic Pattern: ((Null | RangeP[1*Microliter, 20*Liter]) | Automatic) | Null

Index Matches to: Sample

The buffer that should be added to any aliquots requiring dilution, where the volume of this buffer added is the difference between the AliquotAmount and the total AssayVolume.

Default Value: Automatic

Default Calculation: Automatically resolves to Model[Sample, "Milli-Q water"] if ConcentratedBuffer is not specified; otherwise, resolves to Null.

Pattern Description: An object of type or subtype Model[Sample] or Object[Sample] or a prepared sample or Null.

Programmatic Pattern: ((Null | (ObjectP[{Model[Sample], Object[Sample]}] | _String)) | Automatic) | Null

Index Matches to: Sample

AliquotSampleStorageCondition

The non-default conditions under which any aliquot samples generated by this experiment should be stored after the protocol is completed.

Default Value: Automatic

Programmatic Pattern: ((Null | (SampleStorageTypeP | Disposal)) | Automatic) | Null

Index Matches to: Sample

DestinationWell

The desired position in the corresponding AliquotContainer in which the aliquot samples will be placed.

Default Value: Automatic

Default Calculation: Automatically resolves to A1 in containers with only one position. For plates, fills wells in the order provided by the function AllWells.

Pattern Description: Any well from A1 to H12 or list of one or more any well from A1 to H12 or any well from A1 to H12 entries or Null.

Programmatic Pattern: ((WellPositionP | {((Automatic | Null) | WellPositionP)..}) | Automatic) | Null

AliquotContainer

Default Value: Automatic

AliquotPreparation

Indicates the desired scale at which liquid handling used to generate aliquots will occur.

Default Value: Automatic

Default Calculation: Automatic resolution will occur based on manipulation volumes and container types.

Pattern Description: Manual or Robotic or Null.

Programmatic Pattern: (PreparationMethodP | Automatic) | Null

ConsolidateAliquots

Indicates if identical aliquots should be prepared in the same container/position.

Default Value: Automatic

Pattern Description: True or False or Null.

Programmatic Pattern: (BooleanP | Automatic) | Null

Post Experiment

SamplesInStorageCondition

Default Value: Null

Programmatic Pattern: (Null | (Alternatives[SampleStorageTypeP | Disposal])) | Null

Index Matches to: Sample

MeasureWeight

Default Value: Automatic

Pattern Description: True or False or Null.

Programmatic Pattern: (BooleanP | Automatic) | Null

MeasureVolume

Default Value: Automatic

Pattern Description: True or False or Null.

Programmatic Pattern: (BooleanP | Automatic) | Null

ImageSample

Default Value: Automatic

Pattern Description: True or False or Null.

Programmatic Pattern: (BooleanP | Automatic) | Null

Protocol

NumberOfReplicates

Number of times each of the input samples will be centrifuged using identical experimental parameters.

Default Value: Null

Pattern Description: Greater than or equal to 1 in increments of 1 or Null.

Programmatic Pattern: GreaterEqualP[1, 1] | Null

Filter

Sample

Default Value: Automatic

Default Calculation: Automatically set to All if the filtering robotically, or Null otherwise.

Pattern Description: All or Volume or Null.

Programmatic Pattern: ((Null | (All | RangeP[0*Milliliter, 10*Milliliter])) | Automatic) | Null

Index Matches to: Sample

OccludingRetentateContainerLabel

A user defined word or phrase used to identify the container of the sample that clogged a filter and was subsequently collected, for use in downstream unit operations.

Default Value: Automatic

Pattern Description: A string or Null.

Programmatic Pattern: ((Null | _String) | Automatic) | Null

Index Matches to: Sample

WashFlowThroughLabel

The label of the sample that is run through the retentate and filter after initial filtration prior to retentate collection. This value can contain one or multiple different labels for flow through samples per input sample.

Default Value: Automatic

Pattern Description: A string or list of one or more a string or Null or Automatic entries or Null.

Programmatic Pattern: ((Null | (_String | {(_String | (Null | Automatic))..})) | Automatic) | Null

Index Matches to: Sample

Indicates the work cell that this primitive will be run on if Preparation->Robotic.

Default Value: Automatic

Default Calculation: Automatically set to STAR if Preparation->Robotic.

Pattern Description: STAR, bioSTAR, or microbioSTAR or Null.

Programmatic Pattern: ((STAR | bioSTAR | microbioSTAR) | Automatic) | Null

Preparation

Default Calculation: Will be automatically set to .22 Micron or to the PoreSize of Filter if it is specified. Will be automatically set to Null if MolecularWeightCutoff is specified.

Programmatic Pattern: ((Null | FilterSizeP) | Automatic) | Null

Index Matches to: Sample

MolecularWeightCutoff

The molecular weight cutoff of the filter; all particles larger than this should be removed during the filtration.

Default Value: Automatic

Default Calculation: Will be automatically set to Null or to the MolecularWeightCutoff of Filter if it is specified.

Pattern Description: 3 kilograms per mole, 3. kilograms per mole, 10 kilograms per mole, 10. kilograms per mole, 30 kilograms per mole, 30. kilograms per mole, 40 kilograms per mole, 40. kilograms per mole, 50 kilograms per mole, 50. kilograms per mole, 100 kilograms per mole, 100. kilograms per mole, 300 kilograms per mole, 300. kilograms per mole, 7 kilograms per mole, 7. kilograms per mole, 40 kilograms per mole, 40. kilograms per mole, or 30.8328 kilograms per mole or Null.

Programmatic Pattern: ((Null | FilterMolecularWeightCutoffP) | Automatic) | Null

Index Matches to: Sample

PrefilterPoreSize

The pore size of the prefilter; all particles larger than this should be removed during the filtration.

Default Value: Automatic

Default Calculation: Will be automatically set to .45 Micron if a prefilter membrane material is specified.

Programmatic Pattern: ((Null | FilterSizeP) | Automatic) | Null

Index Matches to: Sample

The container that is be used to accumulate the filtrate during the prewetting step.

Default Value: Automatic

Default Calculation: Automatically set to Null if PrewetFilter is set to False. Otherwise, automatically set to the same container model as the CollectionContainer if it is specified, or the same model as the FiltrateContainerOut otherwise.

Pattern Description: An object of type or subtype Model[Container] or Object[Container] or a prepared sample or Null.

Programmatic Pattern: ((Null | (ObjectP[{Model[Container], Object[Container]}] | _String)) | Automatic) | Null

Index Matches to: Sample

Default Value: Automatic

Default Calculation: Automatically set to AspirationMixRate or DispenseRate if either is specified, otherwise set to 100 Microliter/Second.

Pattern Description: Greater than or equal to 0.4 microliters per second and less than or equal to 500 microliters per second or Null.

Programmatic Pattern: ((Null | RangeP[0.4*(Microliter/Second), 500*(Microliter/Second)]) | Automatic) | Null

Index Matches to: Sample

AspirationPosition

Default Value: Automatic

Default Calculation: Automatically set to the AspirationPosition in the PipettingMethod if it is specified and Preparation->Robotic, otherwise resolves to TouchOff if Preparation->Robotic.

Pattern Description: Top, Bottom, LiquidLevel, or TouchOff or Null.

Programmatic Pattern: ((Null | PipettingPositionP) | Automatic) | Null

Index Matches to: Sample

DispensePosition

Default Value: Automatic

Pattern Description: Top, Bottom, LiquidLevel, or TouchOff or Null.

Programmatic Pattern: ((Null | PipettingPositionP) | Automatic) | Null

Index Matches to: Sample

AspirationPositionOffset

Default Value: Automatic

Pattern Description: {X,Y,Z} Coordinate Offset or Z Offset or Null.

Programmatic Pattern: ((Null | (GreaterEqualP[0*Millimeter] | Coordinate[{DistanceP, DistanceP, GreaterEqualP[0*Millimeter]}])) | Automatic) | Null

Index Matches to: Sample

AspirationAngle

Default Value: Automatic

Default Calculation: Automatically set to 0 AngularDegree if Preparation->Robotic. Otherwise, set to Null.

Pattern Description: Greater than or equal to 0 degrees and less than or equal to 10 degrees in increments of 1 degree or Null.

Programmatic Pattern: ((Null | RangeP[0*AngularDegree, 10*AngularDegree, 1*AngularDegree]) | Automatic) | Null

Index Matches to: Sample

Indicates if droplet formation will be prevented during liquid transfer. This will only be used for solvents that have high vapor pressure. This option can only be set if Preparation->Robotic.

Default Value: Automatic

Default Calculation: Automatically set to the DynamicAspiration field in the pipetting method, if available.

Pattern Description: True or False or Null.

Programmatic Pattern: ((Null | BooleanP) | Automatic) | Null

Index Matches to: Sample

Default Value: Automatic

Default Calculation: Automatically set to 1/2 the volume of the source sample or the maximum volume of the pipette being used, depending on which value is smaller.

Pattern Description: Greater than or equal to 0 microliters and less than or equal to 50 milliliters or Null.

Programmatic Pattern: ((Null | RangeP[0*Microliter, 50*Milliliter]) | Automatic) | Null

Index Matches to: Sample

NumberOfAspirationMixes

The number of times the source is quickly aspirated and dispensed to mix the source sample immediately before it is transferred into the destination.

Default Value: Automatic

Default Calculation: Automatically set to 5 if any of the other AspirationMix options are set. Otherwise, set to Null.

Pattern Description: Greater than or equal to 0 and less than or equal to 50 in increments of 1 or Null.

Programmatic Pattern: ((Null | RangeP[0, 50, 1]) | Automatic) | Null

Index Matches to: Sample

MaxNumberOfAspirationMixes

The number of times the source is quickly aspirated and dispensed to mix the source sample immediately before it is transferred into the destination.

Default Value: Automatic

Default Calculation: Automatically set to 5 if any of the other AspirationMix options are set. Otherwise, set to Null.

Pattern Description: Greater than or equal to 0 and less than or equal to 100 in increments of 1 or Null.

Programmatic Pattern: ((Null | RangeP[0, 100, 1]) | Automatic) | Null

Index Matches to: Sample

DispenseMixVolume

Default Value: Automatic

Default Calculation: Automatically set to 1/2 the volume of the destination sample or the maximum volume of the pipette being used, depending on which value is smaller.

Pattern Description: Greater than or equal to 0 microliters and less than or equal to 50 milliliters or Null.

Programmatic Pattern: ((Null | RangeP[0*Microliter, 50*Milliliter]) | Automatic) | Null

Index Matches to: Sample

NumberOfDispenseMixes

The number of times the destination is quickly aspirated and dispensed to mix the destination sample immediately after the source is dispensed.

Default Value: Automatic

Indicates if this sample should be mixed while incubated, prior to starting the experiment.

Default Value: Automatic

Default Calculation: Automatically resolves to True if any Mix related options are set. Otherwise, resolves to False.

Pattern Description: True or False or Null.

Programmatic Pattern: ((Null | BooleanP) | Automatic) | Null

Index Matches to: Sample

MixType

Indicates the style of motion used to mix the sample, prior to starting the experiment.

The desired position in the corresponding AliquotContainer in which the aliquot samples will be placed.

Default Value: Automatic

Default Calculation: Automatically resolves to A1 in containers with only one position. For plates, fills wells in the order provided by the function AllWells.

Pattern Description: Any well from A1 to H12 or Null.

Programmatic Pattern: ((Null | WellPositionP) | Automatic) | Null

Index Matches to: Sample

CentrifugeAliquot

The amount of each sample that should be transferred from the SamplesIn into the CentrifugeAliquotContainer when performing an aliquot before centrifugation.

Default Value: Automatic

Default Value: Automatic

Pattern Description: All or Count or Count or Mass or Volume or Null.

Index Matches to: Sample

TargetConcentration

Default Value: Automatic

Default Calculation: Automatically calculated based on aliquot and buffer volumes.

Pattern Description: Greater than 0 molar or greater than 0 grams per liter or Null.

Programmatic Pattern: ((Null | (GreaterP[0*Molar] | GreaterP[0*(Gram/Liter)])) | Automatic) | Null

Index Matches to: Sample

TargetConcentrationAnalyte

The substance whose final concentration is attained with the TargetConcentration option.

Default Value: Automatic

Programmatic Pattern: ((Null | ObjectP[IdentityModelTypes]) | Automatic) | Null

Index Matches to: Sample

AssayVolume

The desired total volume of the aliquoted sample plus dilution buffer.

Default Value: Automatic

Default Calculation: Automatically determined based on Volume and TargetConcentration option values.

Pattern Description: Greater than or equal to 1 microliter and less than or equal to 20 liters or Null.

Programmatic Pattern: ((Null | RangeP[1*Microliter, 20*Liter]) | Automatic) | Null

Index Matches to: Sample

The buffer that should be added to any aliquots requiring dilution, where the volume of this buffer added is the difference between the AliquotAmount and the total AssayVolume.

Default Value: Automatic

Default Calculation: Automatically resolves to Model[Sample, "Milli-Q water"] if ConcentratedBuffer is not specified; otherwise, resolves to Null.

Pattern Description: An object of type or subtype Model[Sample] or Object[Sample] or a prepared sample or Null.

Programmatic Pattern: ((Null | (ObjectP[{Model[Sample], Object[Sample]}] | _String)) | Automatic) | Null

Index Matches to: Sample

AliquotSampleStorageCondition

The non-default conditions under which any aliquot samples generated by this experiment should be stored after the protocol is completed.

Default Value: Automatic

Programmatic Pattern: ((Null | (SampleStorageTypeP | Disposal)) | Automatic) | Null

Index Matches to: Sample

DestinationWell

The desired position in the corresponding AliquotContainer in which the aliquot samples will be placed.

Default Value: Automatic

Default Calculation: Automatically resolves to A1 in containers with only one position. For plates, fills wells in the order provided by the function AllWells.

Pattern Description: Any well from A1 to H12 or list of one or more any well from A1 to H12 or any well from A1 to H12 entries or Null.

Programmatic Pattern: ((WellPositionP | {((Automatic | Null) | WellPositionP)..}) | Automatic) | Null

AliquotContainer

Default Value: Automatic

AliquotPreparation

Indicates the desired scale at which liquid handling used to generate aliquots will occur.

Default Value: Automatic

Default Calculation: Automatic resolution will occur based on manipulation volumes and container types.

Pattern Description: Manual or Robotic or Null.

Programmatic Pattern: (PreparationMethodP | Automatic) | Null

ConsolidateAliquots

Indicates if identical aliquots should be prepared in the same container/position.

Default Value: Automatic

Pattern Description: True or False or Null.

Programmatic Pattern: (BooleanP | Automatic) | Null

Post Experiment

SamplesOutStorageCondition

Default Value: Null

Programmatic Pattern: (Null | (Alternatives[SampleStorageTypeP | Disposal])) | Null

Index Matches to: Sample

MeasureWeight

Default Value: Automatic

Pattern Description: True or False or Null.

Programmatic Pattern: (BooleanP | Automatic) | Null

MeasureVolume

Default Value: Automatic

Pattern Description: True or False or Null.

Programmatic Pattern: (BooleanP | Automatic) | Null

ImageSample

Default Value: Automatic

Pattern Description: True or False or Null.

Programmatic Pattern: (BooleanP | Automatic) | Null

SolidPhaseExtraction

Sample

The strategy used to select the mobile phase and solid support intended to maximally separate impurities from analytes. ReversePhase separates compounds based on polarity. Sorbent material retains non-polar molecules on its surface. NormalPhase separates compounds based on polarity. Sorbent material retains polar molecules on its surface. IonExchange separates compounds based charge. Sorbent material retains charged molecules on its surface. Affinity separates compounds based on "Lock-and-Key" model between molecules and sorbent materials. Sorbent material selectively retains molecules of interest.

Default Value: Automatic

Default Calculation: Automatically set to match with solution and ExtractionSorbent selected.

Pattern Description: NormalPhase, ReversePhase, IonExchange, SizeExclusion, Affinity, or Chiral or Null.

Programmatic Pattern: ((Null | SeparationModeP) | Automatic) | Null

Index Matches to: Sample

ExtractionSorbent

The material that adsorb analytes or impurities of interest.

Default Value: Automatic

Default Calculation: Automatically resolved to C18, unless ExtractionCartridge or ExtractionSorbent is specified.

Pattern Description: QuaternaryAmmoniumIon, C4, C8, C18, C18Aq, C30, DiVinylBenzene, Biphenyl, Amide, Amine, Polysaccharide, ProteinG, Silica, Carboxylate, AluminaA, AluminaB, AluminaN, Aminopropyl, Diol, Cyanopropyl, Florisil, HLB, WAX, MAX, MCX, WCX, SizeExclusion, Affinity, Chiral, or Null.

Programmatic Pattern: (SolidPhaseExtractionFunctionalGroupP | Automatic) | Null

Index Matches to: Sample

ExtractionCartridge

The sorbent-packed container that forms the stationary phase of the extraction for each sample pool. Samples within the same pool are added to the same ExtractionCartridge's well or vessel, depends on the type of ExtractionCartridge (this is where pooling occurs in SolidPhaseExtraction).

Default Value: Automatic

Default Calculation: Automatically ExtractionCartridge that has C18 ExtractionSorbent, that also fit with the Instrument.

Pattern Description: An object of type or subtype Model[Container, ExtractionCartridge], Object[Container, ExtractionCartridge], Model[Container, Vessel, Filter], Object[Container, Vessel, Filter], Model[Container, Plate, Filter], or Object[Container, Plate, Filter] or a prepared sample.

Programmatic Pattern: (ObjectP[{Model[Container, ExtractionCartridge], Object[Container, ExtractionCartridge], Model[Container, Vessel, Filter], Object[Container, Vessel, Filter], Model[Container, Plate, Filter], Object[Container, Plate, Filter]}] | _String) | Automatic

Index Matches to: Sample

Instrument

The Instrument that generate force to drive the fluid through the sorbent during PreFlushing, Conditioning, LoadingSample, Washing and Eluting steps.

Default Value: Automatic

Default Calculation: Automatically set to match the number of SamplesIn, Volume of all mobile phase solution and collection condition. In case that we cannot find the most compatible instrument, it will default to Gilson GX271 LiquidHandler.

Pattern Description: An object of type or subtype Model[Instrument, LiquidHandler], Object[Instrument, LiquidHandler], Model[Instrument, PressureManifold], Object[Instrument, PressureManifold], Model[Instrument, Centrifuge], Object[Instrument, Centrifuge], Model[Instrument, FilterBlock], or Object[Instrument, FilterBlock]

Programmatic Pattern: ObjectP[{Model[Instrument, LiquidHandler], Object[Instrument, LiquidHandler], Model[Instrument, PressureManifold], Object[Instrument, PressureManifold], Model[Instrument, Centrifuge], Object[Instrument, Centrifuge], Model[Instrument, FilterBlock], Object[Instrument, FilterBlock]}] | Automatic

Index Matches to: Sample

ExtractionMethod

The type of force that is used to flush fluid or sample through the sorbent.

Default Value: Automatic

Default Calculation: Automatically set to match with the chosen Instrument to run SolidPhaseExtraction.

Pattern Description: Injection, Gravity, Pressure, Vacuum, Pipette, or Centrifuge.

Programmatic Pattern: SolidPhaseExtractionMethodP | Automatic

Index Matches to: Sample

ExtractionTemperature

The environmental temperature where the Instrument is set up for ExperimentSolidPhaseExtraction to be performed. The solutions' temperture can be different from ExtractionTemperature.

Default Value: Ambient

Pattern Description: Ambient or greater than or equal to -20 degrees Celsius and less than or equal to 60 degrees Celsius.

Programmatic Pattern: RangeP[-20*Celsius, 60*Celsius] | Ambient

Index Matches to: Sample

ExtractionCartridgeStorageCondition

The conditions under which ExtractionCartridges used by this experiment is stored after the protocol is completed.

Default Value: Disposal

Pattern Description: Storage Object or Storage Type or Null.

Programmatic Pattern: (Null | ((SampleStorageTypeP | Disposal) | ObjectP[Model[StorageCondition]])) | Null

Index Matches to: Sample

WorkCell

Indicates the work cell that this primitive will be run on if Preparation->Robotic.

Default Value: Automatic

Default Calculation: Automatically set to STAR if Preparation->Robotic.

Pattern Description: STAR, bioSTAR, or microbioSTAR or Null.

Programmatic Pattern: ((STAR | bioSTAR | microbioSTAR) | Automatic) | Null

Preparation

Default Value: Automatic

Pattern Description: Manual or Robotic.

Programmatic Pattern: PreparationMethodP | Automatic

The set temperature that PreFlushingSolution is incubated for PreFlushingTemperatureEquilibrationTime before being flushed through the sorbent. The final temperature of PreFlushingSolution is assumed to equilibrate with the set PreFlushingSolutionTemperature.

Default Value: Ambient

Pattern Description: Ambient or greater than or equal to -20 degrees Celsius and less than or equal to 500 degrees Celsius or Null.

Programmatic Pattern: (Null | (RangeP[$MinIncubationTemperature, $MaxIncubationTemperature] | Ambient)) | Null

Index Matches to: Sample

PreFlushingSolutionTemperatureEquilibrationTime

The amount of time that PreFlushingSolution is incubated to achieve the set PreFlushingTemperature. The final temperature of PreFlushingSolution is assumed to equilibrate with the the set PreFlushingTemperature.

Default Value: Automatic

Default Calculation: Automatically set to 3 Minutes, if PreFlushingTemperature is not Ambient.

Pattern Description: Greater than or equal to 0 minutes and less than or equal to 72 hours or Null.

Programmatic Pattern: ((Null | RangeP[0*Minute, $MaxExperimentTime]) | Automatic) | Null

Index Matches to: Sample

Indicates if sorbent is equilibrate with ConditioningSolution in order to chemically prepare the sorbent to bind either to analytes if ExtractionStrategy is Positive, or to impurities if ExtractionStrategy is Negative.

Default Value: True

Pattern Description: True or False.

Programmatic Pattern: BooleanP

Index Matches to: Sample

ConditioningSolution

The solution that is flushed through the sorbent in order to chemically prepare the sorbent to bind either to analytes if ExtractionStrategy is Positive, or to impurities if ExtractionStrategy is Negative.

Default Value: Automatic

Default Calculation: Automatically set to match with ExtractionSorbent as indicate in Table... .

Pattern Description: An object of type or subtype Object[Sample] or Model[Sample] or a prepared sample or Null.

Programmatic Pattern: ((Null | (ObjectP[{Object[Sample], Model[Sample]}] | _String)) | Automatic) | Null

Index Matches to: Sample

ConditioningSolutionVolume

The amount of ConditioningSolution that is flushed through the sorbent to chemically prepare it to bind either analytes if ExtractionStrategy is Positive, or impurities if ExtractionStrategy is Negative.

Default Value: Automatic

Default Calculation: Automatically set to MaxVolume of ExtractionCartridge or MaxVolume of CollectionContainer, which ever is smaller.

Pattern Description: Greater than or equal to 0. milliliters and less than or equal to 20 liters or Null.

Programmatic Pattern: ((Null | RangeP[0.*Milliliter, $MaxTransferVolume]) | Automatic) | Null

Index Matches to: Sample

ConditioningSolutionTemperature

The set temperature that ConditioningSolution is incubated for ConditioningSolutionTemperatureEquilibrationTime before being flushed through the sorbent. The final temperature of ConditioningSolution is assumed to equilibrate with the set ConditioningSolutionTemperature.

Default Value: Ambient

Pattern Description: Ambient or greater than or equal to -20 degrees Celsius and less than or equal to 500 degrees Celsius or Null.

Programmatic Pattern: (Null | (RangeP[$MinIncubationTemperature, $MaxIncubationTemperature] | Ambient)) | Null

Index Matches to: Sample

ConditioningSolutionTemperatureEquilibrationTime

The amount of time that ConditioningSolution is incubated to achieve the set ConditioningSolutionTemperature. The final temperature of ConditioningSolution is assumed to equilibrate with the the set ConditioningSolutionTemperature.

Default Value: Automatic

Default Calculation: Automatically set to 3 Minutes, if ConditioningSolutionTemperature is not Ambient.

Pattern Description: Greater than or equal to 0 minutes and less than or equal to 72 hours or Null.

Programmatic Pattern: ((Null | RangeP[0*Minute, $MaxExperimentTime]) | Automatic) | Null

Index Matches to: Sample

Pattern Description: Ambient or greater than or equal to -20 degrees Celsius and less than or equal to 500 degrees Celsius or Null.

Programmatic Pattern: (Null | (RangeP[$MinIncubationTemperature, $MaxIncubationTemperature] | Ambient)) | Null

Index Matches to: Sample

Nested Index Matches to: Sample

LoadingSampleTemperatureEquilibrationTime

The amount of time that individual samples are incubated at LoadingSampleTemperature.

The set temperature that WashingSolution is incubated for WashingSolutionTemperatureEquilibrationTime before being flushed through the sorbent. The final temperature of WashingSolution is assumed to equilibrate with the set WashingSolutionTemperature.

Default Value: Ambient

Pattern Description: Ambient or greater than or equal to -20 degrees Celsius and less than or equal to 500 degrees Celsius or Null.

Programmatic Pattern: (Null | (RangeP[$MinIncubationTemperature, $MaxIncubationTemperature] | Ambient)) | Null

Index Matches to: Sample

WashingSolutionTemperatureEquilibrationTime

The amount of time that WashingSolution is incubated to achieve the set WashingSolutionTemperature. The final temperature of WashingSolution is assumed to equilibrate with the the set WashingSolutionTemperature.

Default Value: Automatic

Default Calculation: Automatically set to 3 Minutes, if WashingSolutionTemperature is not Ambient.

Pattern Description: Greater than or equal to 0 minutes and less than or equal to 72 hours or Null.

Programmatic Pattern: ((Null | RangeP[0*Minute, $MaxExperimentTime]) | Automatic) | Null

Index Matches to: Sample

The target pressure applied to the ExtractionCartridge to flush WashingSolution through the sorbent. If Instrument is Model[Instrument,PressureManifold,"MPE2"], the WashingSolutionPressure is set to be LoadingSamplePressure (Pressure of Model[Instrument,PressureManifold,"MPE2"] cannot be changed while the Experiment is running).

Default Value: Automatic

Default Calculation: Automatically set to 10 PSI. Applies to ExtractionMethod : Pressure.

Programmatic Pattern: ((Null | RangeP[0*PSI, 100*PSI, 1*PSI]) | Automatic) | Null

Index Matches to: Sample

The target pressure applied to the ExtractionCartridge to flush SecondaryWashingSolution through the sorbent. If Instrument is Model[Instrument,PressureManifold,"MPE2"], the SecondaryWashingSolutionPressure is set to be LoadingSamplePressure (Pressure of Model[Instrument,PressureManifold,"MPE2"] cannot be changed while the Experiment is running).

Default Value: Automatic

Default Calculation: Automatically set to be the same as WashingSolutionPressure.

Programmatic Pattern: ((Null | RangeP[0*PSI, 100*PSI, 1*PSI]) | Automatic) | Null

Index Matches to: Sample

The target pressure applied to the ExtractionCartridge to flush TertiaryWashingSolution through the sorbent. If Instrument is Model[Instrument,PressureManifold,"MPE2"], the TertiaryWashingSolutionPressure is set to be LoadingSamplePressure (Pressure of Model[Instrument,PressureManifold,"MPE2"] cannot be changed while the Experiment is running).

Default Value: Automatic

Default Calculation: Automatically set to be the same as WashingSolutionPressure.

Programmatic Pattern: ((Null | RangeP[0*PSI, 100*PSI, 1*PSI]) | Automatic) | Null

Index Matches to: Sample

Eluting

Indicates if sorbent is flushed with ElutingSolution to release bound analyte from the sorbent.

Default Value: Automatic

Default Calculation: Automatically set to True, if ExtractionStrategy is Positive

Pattern Description: True or False.

Programmatic Pattern: BooleanP | Automatic

Index Matches to: Sample

ElutingSolution

The solution that is used to flush and release bound analyte from the sorbent.

Default Value: Automatic

Default Calculation: Automatically set to match with ExtractionSorbent as indicate in Table... .

Pattern Description: An object of type or subtype Object[Sample] or Model[Sample] or a prepared sample or Null.

Programmatic Pattern: ((Null | (ObjectP[{Object[Sample], Model[Sample]}] | _String)) | Automatic) | Null

Index Matches to: Sample

ElutingSolutionVolume

The amount of EluteSolution that is flushed through the sorbent to release analyte from the sorbent.

Default Value: Automatic

Default Calculation: Automatically set to 25% of MaxVolume of ExtractionCartridge.

Pattern Description: Greater than or equal to 0. milliliters and less than or equal to 20 liters or Null.

Programmatic Pattern: ((Null | RangeP[0.*Milliliter, $MaxTransferVolume]) | Automatic) | Null

Index Matches to: Sample

Indicates if this sample should be mixed while incubated, prior to starting the experiment.

Default Value: Automatic

Default Calculation: Automatically resolves to True if any Mix related options are set. Otherwise, resolves to False.

Pattern Description: True or False or Null.

Programmatic Pattern: ((Null | BooleanP) | Automatic) | Null

Index Matches to: Sample

Nested Index Matches to: Sample

MixType

Indicates the style of motion used to mix the sample, prior to starting the experiment.

The desired position in the corresponding AliquotContainer in which the aliquot samples will be placed.

Default Value: Automatic

Default Calculation: Automatically resolves to A1 in containers with only one position. For plates, fills wells in the order provided by the function AllWells.

Pattern Description: Any well from A1 to H12 or Null.

Programmatic Pattern: ((Null | WellPositionP) | Automatic) | Null

Index Matches to: Sample

Nested Index Matches to: Sample

The instrument that should be used to perform the filtration.

Default Value: Automatic

Default Calculation: Will automatically resolved to an instrument appropriate for the filtration type.

Index Matches to: Sample

Nested Index Matches to: Sample

Filter

The filter that should be used to remove impurities from the SamplesIn prior to starting the experiment.

Default Value: Automatic

Default Calculation: Will automatically resolve to a filter appropriate for the filtration type and instrument.

Pattern Description: An object of type or subtype Model[Container, Plate, Filter], Model[Container, Vessel, Filter], or Model[Item, Filter] or Null.

Programmatic Pattern: ((Null | ObjectP[{Model[Container, Plate, Filter], Model[Container, Vessel, Filter], Model[Item, Filter]}]) | Automatic) | Null

Index Matches to: Sample

Nested Index Matches to: Sample

FilterMaterial

The membrane material of the filter that should be used to remove impurities from the SamplesIn prior to starting the experiment.

Default Value: Automatic

Default Calculation: Resolves to an appropriate filter material for the given sample is Filtration is set to True.

Programmatic Pattern: ((Null | FilterMembraneMaterialP) | Automatic) | Null

Index Matches to: Sample

Nested Index Matches to: Sample

PrefilterMaterial

The material from which the prefilter filtration membrane should be made of to remove impurities from the SamplesIn prior to starting the experiment.

Default Value: Automatic

Default Calculation: By default, no prefiltration is performed on samples, even when Filter->True.

Programmatic Pattern: ((Null | FilterMembraneMaterialP) | Automatic) | Null

Index Matches to: Sample

Nested Index Matches to: Sample

FilterPoreSize

The pore size of the filter that should be used when removing impurities from the SamplesIn prior to starting the experiment.

Default Value: Automatic

Default Calculation: Resolves to an appropriate filter pore size for the given sample is Filtration is set to True.

Programmatic Pattern: ((Null | FilterSizeP) | Automatic) | Null

Index Matches to: Sample

Nested Index Matches to: Sample

The desired container filtered samples should be produced in or transferred into by the end of filtration, with indices indicating grouping of samples in the same plates, if desired.

Default Value: Automatic

Default Calculation: Automatically set as the PreferredContainer for the Volume of the sample. For plates, attempts to fill all wells of a single plate with the same model before using another one.

Pattern Description: An object of type or subtype Model[Container] or Object[Container] or a prepared sample or {Index, Container} or Null.

Index Matches to: Sample

Nested Index Matches to: Sample

FilterAliquotDestinationWell

The desired position in the corresponding AliquotContainer in which the aliquot samples will be placed.

Default Value: Automatic

Default Calculation: Automatically resolves to A1 in containers with only one position. For plates, fills wells in the order provided by the function AllWells.

Pattern Description: Any well from A1 to H12 or Null.

Programmatic Pattern: ((Null | WellPositionP) | Automatic) | Null

Index Matches to: Sample

Nested Index Matches to: Sample

Pattern Description: True or False or Null.

Programmatic Pattern: (BooleanP | Automatic) | Null

MeasureVolume

Default Value: Automatic

Pattern Description: True or False or Null.

Programmatic Pattern: (BooleanP | Automatic) | Null

ImageSample

Default Value: Automatic

Pattern Description: True or False or Null.

Programmatic Pattern: (BooleanP | Automatic) | Null

Aliquot

aliquotRules

SampleOutLabel

The label of the sample(s) that become the SamplesOut.

Default Value: Automatic

Pattern Description: A string.

Programmatic Pattern: _String | Automatic

Index Matches to: Source

ContainerOutLabel

The label of the container that holds the sample that becomes the SamplesOut.

Default Value: Automatic

Pattern Description: A string.

Programmatic Pattern: _String | Automatic

Index Matches to: Source

DestinationWell

The desired position in the corresponding ContainerOut in which the aliquot samples will be placed.

Default Value: Automatic

Default Calculation: Automatically set to A1 in containers with only one position. For plates, fills wells in the order provided by the function AllWells.

Pattern Description: Any well from A1 to H12 for a 96-well plate or from A1 to P24 for a 384-well plate.

Programmatic Pattern: WellPositionP | Automatic

Index Matches to: Source

The buffer that should be added to any aliquots requiring dilution, where the volume of this buffer added is the difference between the AliquotVolume and the total AssayVolume.

Default Value: Automatic

Default Calculation: Automatically set to Model[Sample, "Milli-Q water"] if ConcentratedBuffer is not specified and AssayVolume dictates we require a buffer; otherwise, set to Null.

Pattern Description: An object of type or subtype Object[Sample] or Model[Sample] or a prepared sample or Null.

Programmatic Pattern: ((Null | (ObjectP[{Object[Sample], Model[Sample]}] | _String)) | Automatic) | Null

Index Matches to: Source

AssayBufferLabel

A user defined word or phrase used to identify the buffer added to the aliquoted sample, for use in downstream unit operations.

Default Value: Automatic

Pattern Description: A string or Null.

Programmatic Pattern: ((Null | _String) | Automatic) | Null

Index Matches to: Source

ConsolidateAliquots

Indicates if aliquots from the same sample with the same target concentration should be prepared in the same ContainerOut. Aliquots from the same source sample not requiring dilution will also be consolidated.

Default Value: False

Pattern Description: True or False.

Programmatic Pattern: BooleanP

Preparation

Default Value: Automatic

Pattern Description: Manual or Robotic.

Programmatic Pattern: PreparationMethodP | Automatic

Post Experiment

SamplesOutStorageCondition

Default Value: Null

Programmatic Pattern: (Null | (Alternatives[SampleStorageTypeP | Disposal])) | Null

Index Matches to: Source

SamplesInStorageCondition

Default Value: Null

Programmatic Pattern: (Alternatives[SampleStorageTypeP | Disposal]) | Null

MeasureWeight

Default Value: Automatic

Pattern Description: True or False or Null.

Programmatic Pattern: (BooleanP | Automatic) | Null

MeasureVolume

Default Value: Automatic

Pattern Description: True or False or Null.

Programmatic Pattern: (BooleanP | Automatic) | Null

ImageSample

Default Value: Automatic

Pattern Description: True or False or Null.

Programmatic Pattern: (BooleanP | Automatic) | Null

AbsorbanceSpectroscopy

Options

The options that specify the parameters of this unit operation.

Pattern: {_Rule..}

General

Sample

The samples that will be measured by the plate reader instrument.

Default Value: Null

Pattern Description: Container with Well Position or Sample or Container or Null.

Index Matches to: Sample

RecoupSample

Indicates if the aliquot used to measure the absorbance should be returned to source container after each reading.

Default Value: False

Pattern Description: True or False or Null.

Programmatic Pattern: (Null | BooleanP) | Null

Index Matches to: Sample

ContainerOut

The desired container generated samples should be transferred into by the end of the experiment, with indices indicating grouping of samples in the same plates.

Default Value: Automatic

Default Calculation: Automatically selected from ECL's stocked containers based on the volume of solution being prepared.

Pattern Description: An object of type or subtype Model[Container] or Object[Container] or a prepared sample or Null.

Programmatic Pattern: ((Null | (ObjectP[{Model[Container], Object[Container]}] | _String)) | Automatic) | Null

Index Matches to: Sample

BlankLabel

A user defined word or phrase used to identify the blank samples, for use in downstream unit operations.

Default Value: Automatic

Pattern Description: A string or Null.

Programmatic Pattern: ((Null | _String) | Automatic) | Null

Index Matches to: Sample

Methods

Indicates the type of vessel to be used to measure the absorbance of SamplesIn. PlateReaders utilize an open well container that transveres light from top to bottom. Cuvette uses a square container with transparent sides to transverse light from the front to back at a fixed path length. Microfluidic uses small channels to load samples which are then gravity-driven towards chambers where light transverse from top to bottom and measured at a fixed path length.

Default Value: Automatic

Default Calculation: Automatically determined based on the instrument that can satisfy the requested options. If all instruments are possible, defaults to Microfluidic.

Pattern Description: Microfluidic, Cuvette, or PlateReader.

Programmatic Pattern: AbsorbanceMethodP | Automatic

Instrument

The instrument used for proceeding with measuring the absorbance of the samples according to the AbsorbanceMethod.

Default Value: Automatic

Default Calculation: If using Microfluidic Method, set to Model[Instrument, PlateReader, "Lunatic"]; if using Cuvette Method, set to Model[Instrument, Spectrophotometer, "Cary 3500"]; If using PlateReader Method set to Model[Instrument, PlateReader, "FLUOstar Omega"] .

Pattern Description: An object of type or subtype Model[Instrument, PlateReader], Object[Instrument, PlateReader], Object[Instrument, Spectrophotometer], or Model[Instrument, Spectrophotometer]

Programmatic Pattern: ObjectP[{Model[Instrument, PlateReader], Object[Instrument, PlateReader], Object[Instrument, Spectrophotometer], Model[Instrument, Spectrophotometer]}] | Automatic

MicrofluidicChipLoading

Indicates whether the SamplesIn are loaded by a robotic liquid handler or manually.

Default Value: Automatic

Default Calculation: When using the Microfluidic plate readers, automatically set to Robotic.

Pattern Description: Robotic or Manual or Null.

Programmatic Pattern: ((Robotic | Manual) | Automatic) | Null

Preparation

Default Value: Automatic

Pattern Description: Manual or Robotic.

Programmatic Pattern: PreparationMethodP | Automatic

WorkCell

Indicates the work cell that this primitive will be run on if Preparation->Robotic.

Default Value: Automatic

Default Calculation: Automatically set to STAR if Preparation->Robotic.

Pattern Description: STAR, bioSTAR, or microbioSTAR or Null.

Programmatic Pattern: ((STAR | bioSTAR | microbioSTAR) | Automatic) | Null

When using Cuvette Method (Cary 3500), which device (probe or block) will be used to monitor temperature during the Experiment.

Default Value: Automatic

Default Calculation: When using the Cuvette Method, automatically set to CuvetteBlock. If using plate reader, set to Null.

Pattern Description: CuvetteBlock or ImmersionProbe or Null.

Programmatic Pattern: ((CuvetteBlock | ImmersionProbe) | Automatic) | Null

AcquisitionMixRate

When using the Cuvette Method, indicates the rate at which the samples within the cuvette should be mixed with a stir bar during data acquisition.

Default Value: Automatic

Default Calculation: If AcquisitionMix is True, automatically set AcquisitionMixRate 400 RPM.

Pattern Description: Greater than or equal to 400 revolutions per minute and less than or equal to 1400 revolutions per minute or Null.

Programmatic Pattern: (RangeP[400*RPM, 1400*RPM] | Automatic) | Null

NumberOfReadings

Number of redundant readings taken by the detector to determine a single averaged absorbance reading.

Default Value: Automatic

Default Calculation: If an instrument capable of adjusting NumberOfReadings is selected, resolves to 100. Otherwise resolves to Null

Pattern Description: Greater than or equal to 1 and less than or equal to 200 or Null.

Programmatic Pattern: (RangeP[1, 200] | Automatic) | Null

The amount of the primary sample injected in the first round of injections.

Default Value: Null

Pattern Description: Greater than or equal to 0.5 microliters and less than or equal to 300 microliters or Null.

Programmatic Pattern: (Null | RangeP[0.5*Microliter, 300*Microliter]) | Null

Index Matches to: Sample

SecondaryInjectionSample

The sample to be injected in the second round of injections. Set the corresponding injection times and volumes with SecondaryInjectionTime and SecondaryInjectionVolume.

Default Value: Null

Pattern Description: An object of type or subtype Object[Sample] or Model[Sample] or a prepared sample or Null.

Programmatic Pattern: (Null | (ObjectP[{Object[Sample], Model[Sample]}] | _String)) | Null

Index Matches to: Sample

SecondaryInjectionVolume

The amount of the secondary sample injected in the second round of injections.

Default Value: Null

Pattern Description: Greater than or equal to 0.5 microliters and less than or equal to 300 microliters or Null.

Programmatic Pattern: (Null | RangeP[0.5*Microliter, 300*Microliter]) | Null

Index Matches to: Sample

PrimaryInjectionFlowRate

The speed at which to transfer injection samples into the assay plate in the first round of injections.

Default Value: Automatic

Default Calculation: Defaults to 300 Microliter/Second if primary injections are specified.

Programmatic Pattern: (BMGFlowRateP | Automatic) | Null

SecondaryInjectionFlowRate

The speed at which to transfer injection samples into the assay plate in the second round of injections.

Default Value: Automatic

Default Calculation: Defaults to 300 Microliter/Second if secondary injections are specified.

Programmatic Pattern: (BMGFlowRateP | Automatic) | Null

InjectionSampleStorageCondition

The non-default conditions under which any injection samples used by this experiment are stored after the protocol is completed.

Default Value: Null

Programmatic Pattern: (SampleStorageTypeP | Disposal) | Null

Data Processing

Blanks

The object or source used to generate a blank sample (i.e. buffer only, water only, etc.) whose absorbance is subtracted as background from the absorbance readings of the SamplesIn to take accound for any artifacts.

Default Value: Automatic

Pattern Description: An object of type or subtype Model[Sample] or Object[Sample] or a prepared sample or Null.

Programmatic Pattern: ((Null | (ObjectP[{Model[Sample], Object[Sample]}] | _String)) | Automatic) | Null

Index Matches to: Sample

BlankVolumes

The amount of liquid of the Blank that should be transferred out and used to blank measurements. Set BlankVolume to Null to indicate blanks should be read inside their current containers.

Default Value: Automatic

Default Calculation: If BlankMeasurement is True, automatically set to the value of AssayVolume if that was specified, or maximum volume of the container otherwise.

Pattern Description: Greater than or equal to 1 microliter and less than or equal to 4000 microliters or Null.

Programmatic Pattern: ((Null | RangeP[1*Microliter, 4000*Microliter]) | Automatic) | Null

Index Matches to: Sample

BlankAbsorbance

For each members of SamplesIn, indicates if a corresponding blank measurement, which consists of a separate container (well, chamber, or cuvette) than SampleLink, will be performed, prior to measuring the absorbance of samples. If using Cuvettes, the BlankAbsorbance will be read at the same time as the SampleLink.

Default Value: True

Pattern Description: True or False.

Programmatic Pattern: BooleanP

Preparatory Incubation

Incubate

Default Value: Automatic

Default Calculation: Resolves to True if any of the corresponding Incubation options are set. Otherwise, resolves to False.

Pattern Description: True or False.

Programmatic Pattern: BooleanP | Automatic

Index Matches to: Sample

IncubationTemperature

Temperature at which the SamplesIn should be incubated for the duration of the IncubationTime prior to starting the experiment.

Default Value: Automatic

Pattern Description: Ambient or greater than or equal to -20 degrees Celsius and less than or equal to 500 degrees Celsius or Null.

Programmatic Pattern: ((Null | (Ambient | RangeP[$MinIncubationTemperature, $MaxIncubationTemperature])) | Automatic) | Null

Index Matches to: Sample

Default Value: Automatic

Default Calculation: Automatically resolves to True if MaxIncubationTime or MaxNumberOfMixes is set.

Pattern Description: True or False or Null.

Programmatic Pattern: ((Null | BooleanP) | Automatic) | Null

Index Matches to: Sample

MaxIncubationTime

Default Value: Automatic

Default Calculation: Automatically resolves based on MixType, MixUntilDissolved, and the container of the given sample.

Pattern Description: Greater than or equal to 1 minute and less than or equal to 72 hours or Null.

Programmatic Pattern: ((Null | RangeP[1*Minute, $MaxExperimentTime]) | Automatic) | Null

Index Matches to: Sample

IncubationInstrument

The instrument used to perform the Mix and/or Incubation, prior to starting the experiment.

Default Value: Automatic

Default Calculation: Automatically resolves based on the options Mix, Temperature, MixType and container of the sample.

Programmatic Pattern: ((Null | ObjectP[Join[MixInstrumentModels, MixInstrumentObjects]]) | Automatic) | Null

Index Matches to: Sample

AnnealingTime

Minimum duration for which the SamplesIn should remain in the incubator allowing the system to settle to room temperature after the IncubationTime has passed but prior to starting the experiment.

Default Value: Automatic

Pattern Description: Greater than or equal to 0 minutes and less than or equal to 72 hours or Null.

Programmatic Pattern: ((Null | RangeP[0*Minute, $MaxExperimentTime]) | Automatic) | Null

Index Matches to: Sample

The instrument that should be used to perform the filtration.

Default Value: Automatic

Default Calculation: Will automatically resolved to an instrument appropriate for the filtration type.

Index Matches to: Sample

Filter

The filter that should be used to remove impurities from the SamplesIn prior to starting the experiment.

Default Value: Automatic

Default Calculation: Will automatically resolve to a filter appropriate for the filtration type and instrument.

Pattern Description: An object of type or subtype Model[Container, Plate, Filter], Model[Container, Vessel, Filter], or Model[Item, Filter] or Null.

Programmatic Pattern: ((Null | ObjectP[{Model[Container, Plate, Filter], Model[Container, Vessel, Filter], Model[Item, Filter]}]) | Automatic) | Null

Index Matches to: Sample

FilterMaterial

The membrane material of the filter that should be used to remove impurities from the SamplesIn prior to starting the experiment.

Default Value: Automatic

Default Calculation: Resolves to an appropriate filter material for the given sample is Filtration is set to True.

Programmatic Pattern: ((Null | FilterMembraneMaterialP) | Automatic) | Null

Index Matches to: Sample

PrefilterMaterial

The material from which the prefilter filtration membrane should be made of to remove impurities from the SamplesIn prior to starting the experiment.

Default Value: Automatic

Default Calculation: By default, no prefiltration is performed on samples, even when Filter->True.

Programmatic Pattern: ((Null | FilterMembraneMaterialP) | Automatic) | Null

Index Matches to: Sample

FilterPoreSize

The pore size of the filter that should be used when removing impurities from the SamplesIn prior to starting the experiment.

Default Value: Automatic

Default Calculation: Resolves to an appropriate filter pore size for the given sample is Filtration is set to True.

Programmatic Pattern: ((Null | FilterSizeP) | Automatic) | Null

Index Matches to: Sample

The desired container filtered samples should be produced in or transferred into by the end of filtration, with indices indicating grouping of samples in the same plates, if desired.

Default Value: Automatic

Default Calculation: Automatically set as the PreferredContainer for the Volume of the sample. For plates, attempts to fill all wells of a single plate with the same model before using another one.

Pattern Description: An object of type or subtype Model[Container] or Object[Container] or a prepared sample or {Index, Container} or Null.

Index Matches to: Sample

FilterAliquotDestinationWell

The desired position in the corresponding AliquotContainer in which the aliquot samples will be placed.

Default Value: Automatic

Default Calculation: Automatically resolves to A1 in containers with only one position. For plates, fills wells in the order provided by the function AllWells.

Pattern Description: Any well from A1 to H12 or Null.

Programmatic Pattern: ((Null | WellPositionP) | Automatic) | Null

Index Matches to: Sample

Default Value: Automatic

Pattern Description: All or Count or Count or Mass or Volume or Null.

Index Matches to: Sample

TargetConcentration

Default Value: Automatic

Default Calculation: Automatically calculated based on aliquot and buffer volumes.

Pattern Description: Greater than 0 molar or greater than 0 grams per liter or Null.

Programmatic Pattern: ((Null | (GreaterP[0*Molar] | GreaterP[0*(Gram/Liter)])) | Automatic) | Null

Index Matches to: Sample

TargetConcentrationAnalyte

The substance whose final concentration is attained with the TargetConcentration option.

Default Value: Automatic

Programmatic Pattern: ((Null | ObjectP[IdentityModelTypes]) | Automatic) | Null

Index Matches to: Sample

AssayVolume

The desired total volume of the aliquoted sample plus dilution buffer.

Default Value: Automatic

Default Calculation: Automatically determined based on Volume and TargetConcentration option values.

Pattern Description: Greater than or equal to 1 microliter and less than or equal to 20 liters or Null.

Programmatic Pattern: ((Null | RangeP[1*Microliter, 20*Liter]) | Automatic) | Null

Index Matches to: Sample

The buffer that should be added to any aliquots requiring dilution, where the volume of this buffer added is the difference between the AliquotAmount and the total AssayVolume.

Default Value: Automatic

Default Calculation: Automatically resolves to Model[Sample, "Milli-Q water"] if ConcentratedBuffer is not specified; otherwise, resolves to Null.

Pattern Description: An object of type or subtype Model[Sample] or Object[Sample] or a prepared sample or Null.

Programmatic Pattern: ((Null | (ObjectP[{Model[Sample], Object[Sample]}] | _String)) | Automatic) | Null

Index Matches to: Sample

AliquotSampleStorageCondition

The non-default conditions under which any aliquot samples generated by this experiment should be stored after the protocol is completed.

Default Value: Automatic

Programmatic Pattern: ((Null | (SampleStorageTypeP | Disposal)) | Automatic) | Null

Index Matches to: Sample

DestinationWell

The desired position in the corresponding AliquotContainer in which the aliquot samples will be placed.

Default Value: Automatic

Default Calculation: Automatically resolves to A1 in containers with only one position. For plates, fills wells in the order provided by the function AllWells.

Pattern Description: Any well from A1 to H12 or list of one or more any well from A1 to H12 or any well from A1 to H12 entries or Null.

Programmatic Pattern: ((WellPositionP | {((Automatic | Null) | WellPositionP)..}) | Automatic) | Null

AliquotContainer

Default Value: Automatic

AliquotPreparation

Indicates the desired scale at which liquid handling used to generate aliquots will occur.

Default Value: Automatic

Default Calculation: Automatic resolution will occur based on manipulation volumes and container types.

Pattern Description: Manual or Robotic or Null.

Programmatic Pattern: (PreparationMethodP | Automatic) | Null

ConsolidateAliquots

Indicates if identical aliquots should be prepared in the same container/position.

Default Value: Automatic

Pattern Description: Matrix, Spiral, Ring, or Center or Null.

Programmatic Pattern: (PlateReaderSamplingP | Automatic) | Null

AbsorbanceIntensity

Options

The options that specify the parameters of this unit operation.

Pattern: {_Rule..}

General

Sample

The samples that will be measured by the plate reader instrument.

Default Value: Null

Pattern Description: Container with Well Position or Sample or Container or Null.

Index Matches to: Sample

RecoupSample

Indicates if the aliquot used to measure the absorbance should be returned to source container after each reading.

Default Value: False

Pattern Description: True or False or Null.

Programmatic Pattern: (Null | BooleanP) | Null

Index Matches to: Sample

ContainerOut

The desired container generated samples should be transferred into by the end of the experiment, with indices indicating grouping of samples in the same plates.

Default Value: Automatic

Default Calculation: Automatically selected from ECL's stocked containers based on the volume of solution being prepared.

Pattern Description: Row, Column, SerpentineRow, or SerpentineColumn or Null.

Programmatic Pattern: (ReadDirectionP | Automatic) | Null

Optics

Wavelength

The specific wavelength(s) which should be used to measure absorbance in the samples.

Default Value: Automatic

Default Calculation: Defaults to 300 Microliter/Second if primary injections are specified.

Programmatic Pattern: (BMGFlowRateP | Automatic) | Null

SecondaryInjectionFlowRate

The speed at which to transfer injection samples into the assay plate in the second round of injections.

Default Value: Automatic

Default Calculation: Defaults to 300 Microliter/Second if secondary injections are specified.

Programmatic Pattern: (BMGFlowRateP | Automatic) | Null

InjectionSampleStorageCondition

The non-default conditions under which any injection samples used by this experiment are stored after the protocol is completed.

Default Value: Null

Programmatic Pattern: (SampleStorageTypeP | Disposal) | Null

Data Processing

Blanks

Default Value: Automatic

Pattern Description: An object of type or subtype Model[Sample] or Object[Sample] or a prepared sample or Null.

Programmatic Pattern: ((Null | (ObjectP[{Model[Sample], Object[Sample]}] | _String)) | Automatic) | Null

Index Matches to: Sample

BlankVolumes

The amount of liquid of the Blank that should be transferred out and used to blank measurements. Set BlankVolume to Null to indicate blanks should be read inside their current containers.

Default Value: Automatic

Default Calculation: If BlankMeasurement is True, automatically set to the value of AssayVolume if that was specified, or maximum volume of the container otherwise.

Pattern Description: Greater than or equal to 1 microliter and less than or equal to 4000 microliters or Null.

Programmatic Pattern: ((Null | RangeP[1*Microliter, 4000*Microliter]) | Automatic) | Null

Index Matches to: Sample

BlankAbsorbance

Default Value: True

Default Calculation: Automatically resolves to True if any Mix related options are set. Otherwise, resolves to False.

Pattern Description: True or False or Null.

Programmatic Pattern: ((Null | BooleanP) | Automatic) | Null

Index Matches to: Sample

MixType

Indicates the style of motion used to mix the sample, prior to starting the experiment.

The instrument that should be used to perform the filtration.

Default Value: Automatic

Default Calculation: Will automatically resolved to an instrument appropriate for the filtration type.

Index Matches to: Sample

Filter

The filter that should be used to remove impurities from the SamplesIn prior to starting the experiment.

Default Value: Automatic

Default Calculation: Will automatically resolve to a filter appropriate for the filtration type and instrument.

Pattern Description: An object of type or subtype Model[Container, Plate, Filter], Model[Container, Vessel, Filter], or Model[Item, Filter] or Null.

Programmatic Pattern: ((Null | ObjectP[{Model[Container, Plate, Filter], Model[Container, Vessel, Filter], Model[Item, Filter]}]) | Automatic) | Null

Index Matches to: Sample

FilterMaterial

The membrane material of the filter that should be used to remove impurities from the SamplesIn prior to starting the experiment.

Default Value: Automatic

Default Calculation: Resolves to an appropriate filter material for the given sample is Filtration is set to True.

Programmatic Pattern: ((Null | FilterMembraneMaterialP) | Automatic) | Null

Index Matches to: Sample

PrefilterMaterial

The material from which the prefilter filtration membrane should be made of to remove impurities from the SamplesIn prior to starting the experiment.

Default Value: Automatic

Default Calculation: By default, no prefiltration is performed on samples, even when Filter->True.

Programmatic Pattern: ((Null | FilterMembraneMaterialP) | Automatic) | Null

Index Matches to: Sample

FilterPoreSize

The pore size of the filter that should be used when removing impurities from the SamplesIn prior to starting the experiment.

Default Value: Automatic

Default Calculation: Resolves to an appropriate filter pore size for the given sample is Filtration is set to True.

Programmatic Pattern: ((Null | FilterSizeP) | Automatic) | Null

Index Matches to: Sample

The desired container filtered samples should be produced in or transferred into by the end of filtration, with indices indicating grouping of samples in the same plates, if desired.

Default Value: Automatic

Default Calculation: Automatically set as the PreferredContainer for the Volume of the sample. For plates, attempts to fill all wells of a single plate with the same model before using another one.

Pattern Description: An object of type or subtype Model[Container] or Object[Container] or a prepared sample or {Index, Container} or Null.

Index Matches to: Sample

FilterAliquotDestinationWell

The desired position in the corresponding AliquotContainer in which the aliquot samples will be placed.

Default Value: Automatic

Default Calculation: Automatically resolves to A1 in containers with only one position. For plates, fills wells in the order provided by the function AllWells.

Pattern Description: Any well from A1 to H12 or Null.

Programmatic Pattern: ((Null | WellPositionP) | Automatic) | Null

Index Matches to: Sample

Default Value: Automatic

Pattern Description: All or Count or Count or Mass or Volume or Null.

Index Matches to: Sample

TargetConcentration

Default Value: Automatic

Default Calculation: Automatically calculated based on aliquot and buffer volumes.

Pattern Description: Greater than 0 molar or greater than 0 grams per liter or Null.

Programmatic Pattern: ((Null | (GreaterP[0*Molar] | GreaterP[0*(Gram/Liter)])) | Automatic) | Null

Index Matches to: Sample

TargetConcentrationAnalyte

The substance whose final concentration is attained with the TargetConcentration option.

Default Value: Automatic

Programmatic Pattern: ((Null | ObjectP[IdentityModelTypes]) | Automatic) | Null

Index Matches to: Sample

AssayVolume

The desired total volume of the aliquoted sample plus dilution buffer.

Default Value: Automatic

Default Calculation: Automatically determined based on Volume and TargetConcentration option values.

Pattern Description: Greater than or equal to 1 microliter and less than or equal to 20 liters or Null.

Programmatic Pattern: ((Null | RangeP[1*Microliter, 20*Liter]) | Automatic) | Null

Index Matches to: Sample

The buffer that should be added to any aliquots requiring dilution, where the volume of this buffer added is the difference between the AliquotAmount and the total AssayVolume.

Default Value: Automatic

Default Calculation: Automatically resolves to Model[Sample, "Milli-Q water"] if ConcentratedBuffer is not specified; otherwise, resolves to Null.

Pattern Description: An object of type or subtype Model[Sample] or Object[Sample] or a prepared sample or Null.

Programmatic Pattern: ((Null | (ObjectP[{Model[Sample], Object[Sample]}] | _String)) | Automatic) | Null

Index Matches to: Sample

AliquotSampleStorageCondition

The non-default conditions under which any aliquot samples generated by this experiment should be stored after the protocol is completed.

Default Value: Automatic

Programmatic Pattern: ((Null | (SampleStorageTypeP | Disposal)) | Automatic) | Null

Index Matches to: Sample

DestinationWell

The desired position in the corresponding AliquotContainer in which the aliquot samples will be placed.

Default Value: Automatic

Default Calculation: Automatically resolves to A1 in containers with only one position. For plates, fills wells in the order provided by the function AllWells.

Pattern Description: Any well from A1 to H12 or list of one or more any well from A1 to H12 or any well from A1 to H12 entries or Null.

Programmatic Pattern: ((WellPositionP | {((Automatic | Null) | WellPositionP)..}) | Automatic) | Null

AliquotContainer

Default Value: Automatic

AliquotPreparation

Indicates the desired scale at which liquid handling used to generate aliquots will occur.

Default Value: Automatic

Default Calculation: Automatic resolution will occur based on manipulation volumes and container types.

Pattern Description: Manual or Robotic or Null.

Programmatic Pattern: (PreparationMethodP | Automatic) | Null

ConsolidateAliquots

Indicates if identical aliquots should be prepared in the same container/position.

Default Value: Automatic

Pattern Description: Matrix, Spiral, Ring, or Center or Null.

Programmatic Pattern: (PlateReaderSamplingP | Automatic) | Null

AbsorbanceKinetics

Options

The options that specify the parameters of this unit operation.

Pattern: {_Rule..}

General

Sample

The samples that will be measured by the plate reader instrument.

Default Value: Null

Pattern Description: Container with Well Position or Sample or Container or Null.

Index Matches to: Sample

BlankLabel

A user defined word or phrase used to identify the blank samples, for use in downstream unit operations.

Default Value: Automatic

Pattern Description: A string or Null.

Programmatic Pattern: ((Null | _String) | Automatic) | Null

Index Matches to: Sample

Instrument

The plate reader used to measure absorbance.

Default Value: Automatic

Default Calculation: Resolves to the instrument capable of performing the requested sampling. If any instrument can be used, resolves to use the model with the most available instruments in the lab.

Pattern Description: An object of type or subtype Model[Instrument, PlateReader] or Object[Instrument, PlateReader]

Programmatic Pattern: ObjectP[{Model[Instrument, PlateReader], Object[Instrument, PlateReader]}] | Automatic

Preparation

Default Value: Automatic

Pattern Description: Manual or Robotic.

Programmatic Pattern: PreparationMethodP | Automatic

WorkCell

Indicates the work cell that this primitive will be run on if Preparation->Robotic.

Default Value: Automatic

Default Calculation: Automatically set to STAR if Preparation->Robotic.

Pattern Description: STAR, bioSTAR, or microbioSTAR or Null.

Programmatic Pattern: ((STAR | bioSTAR | microbioSTAR) | Automatic) | Null

NumberOfReplicates

Programmatic Pattern: (Null | (ObjectP[{Object[Sample], Model[Sample]}] | _String)) | Null

Index Matches to: Sample

TertiaryInjectionVolume

The amount of the tertiary sample injected in the third round of injections.

Default Value: Null

Pattern Description: Greater than or equal to 0.5 microliters and less than or equal to 300 microliters or Null.

Programmatic Pattern: (Null | RangeP[0.5*Microliter, 300*Microliter]) | Null

Index Matches to: Sample

QuaternaryInjectionSample

Default Value: Null

Pattern Description: An object of type or subtype Object[Sample] or Model[Sample] or a prepared sample or Null.

Programmatic Pattern: (Null | (ObjectP[{Object[Sample], Model[Sample]}] | _String)) | Null

Index Matches to: Sample

QuaternaryInjectionVolume

The amount of the quaternary sample injected in the fourth round of injections.

Default Value: Null

Pattern Description: Greater than or equal to 0.5 microliters and less than or equal to 300 microliters or Null.

Programmatic Pattern: (Null | RangeP[0.5*Microliter, 300*Microliter]) | Null

Index Matches to: Sample

PrimaryInjectionFlowRate

The speed at which to transfer injection samples into the assay plate in the first round of injections.

Default Value: Automatic

Default Calculation: Defaults to 300 Microliter/Second if primary injections are specified.

Programmatic Pattern: (BMGFlowRateP | Automatic) | Null

SecondaryInjectionFlowRate

The speed at which to transfer injection samples into the assay plate in the second round of injections.

Default Value: Automatic

Default Calculation: Defaults to 300 Microliter/Second if secondary injections are specified.

Programmatic Pattern: (BMGFlowRateP | Automatic) | Null

InjectionSampleStorageCondition

The non-default conditions under which any injection samples used by this experiment are stored after the protocol is completed.

Default Value: Null

Programmatic Pattern: (SampleStorageTypeP | Disposal) | Null

PrimaryInjectionTime

The time at which the first round of injections starts.

Default Value: Null

Pattern Description: Greater than or equal to 1 second and less than or equal to 24 hours or Null.

Programmatic Pattern: RangeP[1*Second, 24*Hour] | Null

SecondaryInjectionTime

The time at which the second round of injections starts.

Default Value: Null

Pattern Description: Greater than or equal to 1 second and less than or equal to 24 hours or Null.

Programmatic Pattern: RangeP[1*Second, 24*Hour] | Null

TertiaryInjectionTime

The time at which the third round of injections starts.

Default Value: Null

Pattern Description: Greater than or equal to 1 second and less than or equal to 24 hours or Null.

Programmatic Pattern: RangeP[1*Second, 24*Hour] | Null

QuaternaryInjectionTime

The time at which the fourth round of injections starts.

Default Value: Null

Pattern Description: Greater than or equal to 1 second and less than or equal to 24 hours or Null.

Programmatic Pattern: RangeP[1*Second, 24*Hour] | Null

Data Processing

Blanks

Default Value: Automatic

Pattern Description: An object of type or subtype Model[Sample] or Object[Sample] or a prepared sample or Null.

Programmatic Pattern: ((Null | (ObjectP[{Model[Sample], Object[Sample]}] | _String)) | Automatic) | Null

Index Matches to: Sample

BlankVolumes

The amount of liquid of the Blank that should be transferred out and used to blank measurements. Set BlankVolume to Null to indicate blanks should be read inside their current containers.

Default Value: Automatic

Default Calculation: If BlankMeasurement is True, automatically set to the value of AssayVolume if that was specified, or maximum volume of the container otherwise.

Pattern Description: Greater than or equal to 1 microliter and less than or equal to 4000 microliters or Null.

Programmatic Pattern: ((Null | RangeP[1*Microliter, 4000*Microliter]) | Automatic) | Null

Index Matches to: Sample

BlankAbsorbance

Default Value: True

Pattern Description: True or False.

Programmatic Pattern: BooleanP

Preparatory Incubation

Incubate

Default Value: Automatic

Default Calculation: Resolves to True if any of the corresponding Incubation options are set. Otherwise, resolves to False.

Pattern Description: True or False.

Programmatic Pattern: BooleanP | Automatic

Index Matches to: Sample

IncubationTemperature

Temperature at which the SamplesIn should be incubated for the duration of the IncubationTime prior to starting the experiment.

Default Value: Automatic

Pattern Description: Ambient or greater than or equal to -20 degrees Celsius and less than or equal to 500 degrees Celsius or Null.

Programmatic Pattern: ((Null | (Ambient | RangeP[$MinIncubationTemperature, $MaxIncubationTemperature])) | Automatic) | Null

Index Matches to: Sample

Default Value: Automatic

Default Calculation: Automatically resolves to True if MaxIncubationTime or MaxNumberOfMixes is set.

Pattern Description: True or False or Null.

Programmatic Pattern: ((Null | BooleanP) | Automatic) | Null

Index Matches to: Sample

MaxIncubationTime

Default Value: Automatic

Default Calculation: Automatically resolves based on MixType, MixUntilDissolved, and the container of the given sample.

Pattern Description: Greater than or equal to 1 minute and less than or equal to 72 hours or Null.

Programmatic Pattern: ((Null | RangeP[1*Minute, $MaxExperimentTime]) | Automatic) | Null

Index Matches to: Sample

IncubationInstrument

The instrument used to perform the Mix and/or Incubation, prior to starting the experiment.

Default Value: Automatic

Default Calculation: Automatically resolves based on the options Mix, Temperature, MixType and container of the sample.

Programmatic Pattern: ((Null | ObjectP[Join[MixInstrumentModels, MixInstrumentObjects]]) | Automatic) | Null

Index Matches to: Sample

AnnealingTime

Minimum duration for which the SamplesIn should remain in the incubator allowing the system to settle to room temperature after the IncubationTime has passed but prior to starting the experiment.

Default Value: Automatic

Pattern Description: Greater than or equal to 0 minutes and less than or equal to 72 hours or Null.

Programmatic Pattern: ((Null | RangeP[0*Minute, $MaxExperimentTime]) | Automatic) | Null

Index Matches to: Sample

The instrument that should be used to perform the filtration.

Default Value: Automatic

Default Calculation: Will automatically resolved to an instrument appropriate for the filtration type.

Index Matches to: Sample

Filter

The filter that should be used to remove impurities from the SamplesIn prior to starting the experiment.

Default Value: Automatic

Default Calculation: Will automatically resolve to a filter appropriate for the filtration type and instrument.

Pattern Description: An object of type or subtype Model[Container, Plate, Filter], Model[Container, Vessel, Filter], or Model[Item, Filter] or Null.

Programmatic Pattern: ((Null | ObjectP[{Model[Container, Plate, Filter], Model[Container, Vessel, Filter], Model[Item, Filter]}]) | Automatic) | Null

Index Matches to: Sample

FilterMaterial

The membrane material of the filter that should be used to remove impurities from the SamplesIn prior to starting the experiment.

Default Value: Automatic

Default Calculation: Resolves to an appropriate filter material for the given sample is Filtration is set to True.

Programmatic Pattern: ((Null | FilterMembraneMaterialP) | Automatic) | Null

Index Matches to: Sample

PrefilterMaterial

The material from which the prefilter filtration membrane should be made of to remove impurities from the SamplesIn prior to starting the experiment.

Default Value: Automatic

Default Calculation: By default, no prefiltration is performed on samples, even when Filter->True.

Programmatic Pattern: ((Null | FilterMembraneMaterialP) | Automatic) | Null

Index Matches to: Sample

FilterPoreSize

The pore size of the filter that should be used when removing impurities from the SamplesIn prior to starting the experiment.

Default Value: Automatic

Default Calculation: Resolves to an appropriate filter pore size for the given sample is Filtration is set to True.

Programmatic Pattern: ((Null | FilterSizeP) | Automatic) | Null

Index Matches to: Sample

The desired container filtered samples should be produced in or transferred into by the end of filtration, with indices indicating grouping of samples in the same plates, if desired.

Default Value: Automatic

Default Calculation: Automatically set as the PreferredContainer for the Volume of the sample. For plates, attempts to fill all wells of a single plate with the same model before using another one.

Pattern Description: An object of type or subtype Model[Container] or Object[Container] or a prepared sample or {Index, Container} or Null.

Index Matches to: Sample

FilterAliquotDestinationWell

The desired position in the corresponding AliquotContainer in which the aliquot samples will be placed.

Default Value: Automatic

Default Calculation: Automatically resolves to A1 in containers with only one position. For plates, fills wells in the order provided by the function AllWells.

Pattern Description: Any well from A1 to H12 or Null.

Programmatic Pattern: ((Null | WellPositionP) | Automatic) | Null

Index Matches to: Sample

Default Value: Automatic

Pattern Description: All or Count or Count or Mass or Volume or Null.

Index Matches to: Sample

TargetConcentration

Default Value: Automatic

Default Calculation: Automatically calculated based on aliquot and buffer volumes.

Pattern Description: Greater than 0 molar or greater than 0 grams per liter or Null.

Programmatic Pattern: ((Null | (GreaterP[0*Molar] | GreaterP[0*(Gram/Liter)])) | Automatic) | Null

Index Matches to: Sample

TargetConcentrationAnalyte

The substance whose final concentration is attained with the TargetConcentration option.

Default Value: Automatic

Programmatic Pattern: ((Null | ObjectP[IdentityModelTypes]) | Automatic) | Null

Index Matches to: Sample

AssayVolume

The desired total volume of the aliquoted sample plus dilution buffer.

Default Value: Automatic

Default Calculation: Automatically determined based on Volume and TargetConcentration option values.

Pattern Description: Greater than or equal to 1 microliter and less than or equal to 20 liters or Null.

Programmatic Pattern: ((Null | RangeP[1*Microliter, 20*Liter]) | Automatic) | Null

Index Matches to: Sample

The buffer that should be added to any aliquots requiring dilution, where the volume of this buffer added is the difference between the AliquotAmount and the total AssayVolume.

Default Value: Automatic

Default Calculation: Automatically resolves to Model[Sample, "Milli-Q water"] if ConcentratedBuffer is not specified; otherwise, resolves to Null.

Pattern Description: An object of type or subtype Model[Sample] or Object[Sample] or a prepared sample or Null.

Programmatic Pattern: ((Null | (ObjectP[{Model[Sample], Object[Sample]}] | _String)) | Automatic) | Null

Index Matches to: Sample

AliquotSampleStorageCondition

The non-default conditions under which any aliquot samples generated by this experiment should be stored after the protocol is completed.

Default Value: Automatic

Programmatic Pattern: ((Null | (SampleStorageTypeP | Disposal)) | Automatic) | Null

Index Matches to: Sample

DestinationWell

The desired position in the corresponding AliquotContainer in which the aliquot samples will be placed.

Default Value: Automatic

Default Calculation: Automatically resolves to A1 in containers with only one position. For plates, fills wells in the order provided by the function AllWells.

Pattern Description: Any well from A1 to H12 or list of one or more any well from A1 to H12 or any well from A1 to H12 entries or Null.

Programmatic Pattern: ((WellPositionP | {((Automatic | Null) | WellPositionP)..}) | Automatic) | Null

AliquotContainer

Default Value: Automatic

AliquotPreparation

Indicates the desired scale at which liquid handling used to generate aliquots will occur.

Default Value: Automatic

Default Calculation: Automatic resolution will occur based on manipulation volumes and container types.

Pattern Description: Manual or Robotic or Null.

Programmatic Pattern: (PreparationMethodP | Automatic) | Null

ConsolidateAliquots

Indicates if identical aliquots should be prepared in the same container/position.

Default Value: Automatic

Pattern Description: True or False or Null.

Programmatic Pattern: (BooleanP | Automatic) | Null

Post Experiment

SamplesInStorageCondition

Default Value: Null

Programmatic Pattern: (Null | (Alternatives[SampleStorageTypeP | Disposal])) | Null

Index Matches to: Sample

MeasureWeight

Default Value: Automatic

Pattern Description: True or False or Null.

Programmatic Pattern: (BooleanP | Automatic) | Null

MeasureVolume

Default Value: Automatic

Pattern Description: True or False or Null.

Programmatic Pattern: (BooleanP | Automatic) | Null

ImageSample

Pattern Description: An object of type or subtype Object[Sample] or Model[Sample] or a prepared sample or Null.

Programmatic Pattern: ((ObjectP[{Object[Sample], Model[Sample]}] | _String) | Automatic) | Null

RetainCover

Indicates if the plate seal or lid on the assay container should not be taken off during measurement to decrease evaporation. When this option is set to True, injections cannot be performed as it's not possible to inject samples through the cover. When using the Cuvette Method, automatically set to True.

Default Value: False

Pattern Description: True or False.

Programmatic Pattern: BooleanP

TertiaryInjectionFlowRate

The speed at which to transfer injection samples into the assay plate in the third round of injections.

Default Value: Automatic

Default Calculation: Defaults to 300 Microliter/Second if tertiary injections are specified.

Programmatic Pattern: (BMGFlowRateP | Automatic) | Null

QuaternaryInjectionFlowRate

The speed at which to transfer injection samples into the assay plate in the fourth round of injections.

Default Value: Automatic

Default Calculation: Defaults to 300 Microliter/Second if quaternary injections are specified.

Programmatic Pattern: (BMGFlowRateP | Automatic) | Null

Absorbance Measurement

NumberOfReadings

Number of redundant readings taken by the detector to determine a single averaged absorbance reading.

Default Value: Automatic

Default Calculation: If an instrument capable of adjusting NumberOfReadings is selected, resolves to 100. Otherwise resolves to Null

Pattern Description: Greater than or equal to 1 and less than or equal to 200 or Null.

Programmatic Pattern: (RangeP[1, 200] | Automatic) | Null

ReadDirection

Indicate the plate path the instrument will follow as it measures absorbance in each well, for instance reading all wells in a row before continuing on to the next row (Row).

Default Value: Automatic

Default Calculation: Resolves to Row if a plate reader capable of adjusting read direction is selected.

Pattern Description: Row, Column, SerpentineRow, or SerpentineColumn or Null.

Programmatic Pattern: (ReadDirectionP | Automatic) | Null

RunTime

The length of time for which absorbance measurements are made.

Default Value: 45 minutes

Pattern Description: Greater than or equal to 1 minute and less than or equal to 24 hours.

Programmatic Pattern: RangeP[1*Minute, 24*Hour]

ReadOrder

Indicates if all measurements and injections are done for one well before advancing to the next (Serial) or in cycles in which each well is read once per cycle (Parallel).

Default Value: Parallel

Pattern Description: Serial or Parallel.

Programmatic Pattern: ReadOrderP

Wavelength

The wavelength(s) at which absorbance is measured. All indicates that the full spectrum available to the plate reader is used.

Options

The options that specify the parameters of this unit operation.

Pattern: {_Rule..}

General

Sample

The samples that will be measured by the plate reader instrument.

Default Value: Null

Pattern Description: Container with Well Position or Sample or Container or Null.

Index Matches to: Sample

RetainCover

Default Value: False

Pattern Description: True or False.

Programmatic Pattern: BooleanP

Preparation

Pattern Description: Greater than or equal to 0.5 microliters and less than or equal to 300 microliters or Null.

Programmatic Pattern: (Null | RangeP[0.5*Microliter, 300*Microliter]) | Null

Index Matches to: Sample

Temperature

The temperature at which the plate reader chamber should be held.

Default Value: Ambient

Pattern Description: Ambient or greater than or equal to 25 degrees Celsius and less than or equal to 45 degrees Celsius.

Programmatic Pattern: RangeP[$AmbientTemperature, 45*Celsius] | Ambient

EquilibrationTime

The length of time for which the assay plates should equilibrate at the requested temperature in the plate reader before being read.

Default Value: Automatic

Default Calculation: Defaults to 0 Second if Temperature is set to Ambient. Otherwise defaults to 5 Minute.

Pattern Description: Greater than or equal to 0 minutes and less than or equal to 1 hour.

Programmatic Pattern: RangeP[0*Minute, 1*Hour] | Automatic

TargetCarbonDioxideLevel

The target amount of carbon dioxide in the atmosphere in the plate reader chamber.

Default Value: Automatic

Default Calculation: Automatically set to 5% for mammalian cells, and Null otherwise.

Pattern Description: Greater than or equal to 0.1 percent and less than or equal to 20 percent or Null.

Programmatic Pattern: (RangeP[0.1*Percent, 20*Percent] | Automatic) | Null

TargetOxygenLevel

Default Value: Null

Pattern Description: Greater than or equal to 0.1 percent and less than or equal to 20 percent or Null.

Programmatic Pattern: RangeP[0.1*Percent, 20*Percent] | Null

AtmosphereEquilibrationTime

The length of time for which the samples equilibrate at the requested oxygen and carbon dioxide level before being read.

Default Value: Automatic

Default Calculation: Automatically set to 5 Minute if TargetCarbonDioxideLevel or TargetOxygenLevel is specified. Otherwise, set to Null.

Pattern Description: Greater than or equal to 0 seconds and less than or equal to 24 hours or Null.

Programmatic Pattern: (RangeP[0*Second, 24*Hour] | Automatic) | Null

PrimaryInjectionFlowRate

The speed at which to transfer injection samples into the assay plate in the first round of injections.

Default Value: Automatic

Default Calculation: Defaults to 300 Microliter/Second if primary injections are specified.

Programmatic Pattern: (BMGFlowRateP | Automatic) | Null

Indicate the plate path the instrument should follow as it measures luminescence in each well, for instance reading all wells in a row before continuing on to the next row (Row).

Default Value: Row

Pattern Description: Row, Column, SerpentineRow, or SerpentineColumn.

Programmatic Pattern: ReadDirectionP

MoatSize

Indicates the number of concentric perimeters of wells which should be should be filled with MoatBuffer in order to decrease evaporation from the assay samples during the run.

Default Value: Automatic

Default Calculation: Defaults to 1 if any other moat options are specified.

Pattern Description: Greater than 0 in increments of 1 or Null.

Programmatic Pattern: (GreaterP[0, 1] | Automatic) | Null

MoatVolume

Indicates the volume which should be added to each moat well.

Default Value: Automatic

Default Calculation: Defaults to the min volume of the assay plate if any other moat options are specified.

Pattern Description: Greater than 0 microliters or Null.

Programmatic Pattern: (GreaterP[0*Microliter] | Automatic) | Null

MoatBuffer

Indicates the buffer which should be used to fill each moat well.

Default Value: Automatic

Default Calculation: Defaults to Milli-Q water if any other moat options are specified.

Pattern Description: An object of type or subtype Object[Sample] or Model[Sample] or a prepared sample or Null.

Programmatic Pattern: ((ObjectP[{Object[Sample], Model[Sample]}] | _String) | Automatic) | Null

InjectionSampleStorageCondition

The non-default conditions under which any injection samples used by this experiment should be stored after the protocol is completed.

Default Value: Null

Programmatic Pattern: (SampleStorageTypeP | Disposal) | Null

Post Experiment

SamplesInStorageCondition

Default Value: Null

Programmatic Pattern: (Null | (Alternatives[SampleStorageTypeP | Disposal])) | Null

Index Matches to: Sample

MeasureWeight

Default Value: Automatic

Pattern Description: True or False or Null.

Programmatic Pattern: (BooleanP | Automatic) | Null

MeasureVolume

Default Value: Automatic

Pattern Description: True or False or Null.

Programmatic Pattern: (BooleanP | Automatic) | Null

ImageSample

Default Value: Automatic

Default Calculation: Automatically resolves to True if any Mix related options are set. Otherwise, resolves to False.

Pattern Description: True or False or Null.

Programmatic Pattern: ((Null | BooleanP) | Automatic) | Null

Index Matches to: Sample

MixType

Indicates the style of motion used to mix the sample, prior to starting the experiment.

The instrument that should be used to perform the filtration.

Default Value: Automatic

Default Calculation: Will automatically resolved to an instrument appropriate for the filtration type.

Index Matches to: Sample

Filter

The filter that should be used to remove impurities from the SamplesIn prior to starting the experiment.

Default Value: Automatic

Default Calculation: Will automatically resolve to a filter appropriate for the filtration type and instrument.

Pattern Description: An object of type or subtype Model[Container, Plate, Filter], Model[Container, Vessel, Filter], or Model[Item, Filter] or Null.

Programmatic Pattern: ((Null | ObjectP[{Model[Container, Plate, Filter], Model[Container, Vessel, Filter], Model[Item, Filter]}]) | Automatic) | Null

Index Matches to: Sample

FilterMaterial

The membrane material of the filter that should be used to remove impurities from the SamplesIn prior to starting the experiment.

Default Value: Automatic

Default Calculation: Resolves to an appropriate filter material for the given sample is Filtration is set to True.

Programmatic Pattern: ((Null | FilterMembraneMaterialP) | Automatic) | Null

Index Matches to: Sample

PrefilterMaterial

The material from which the prefilter filtration membrane should be made of to remove impurities from the SamplesIn prior to starting the experiment.

Default Value: Automatic

Default Calculation: By default, no prefiltration is performed on samples, even when Filter->True.

Programmatic Pattern: ((Null | FilterMembraneMaterialP) | Automatic) | Null

Index Matches to: Sample

FilterPoreSize

The pore size of the filter that should be used when removing impurities from the SamplesIn prior to starting the experiment.

Default Value: Automatic

Default Calculation: Resolves to an appropriate filter pore size for the given sample is Filtration is set to True.

Programmatic Pattern: ((Null | FilterSizeP) | Automatic) | Null

Index Matches to: Sample

The desired container filtered samples should be produced in or transferred into by the end of filtration, with indices indicating grouping of samples in the same plates, if desired.

Default Value: Automatic

Default Calculation: Automatically set as the PreferredContainer for the Volume of the sample. For plates, attempts to fill all wells of a single plate with the same model before using another one.

Pattern Description: An object of type or subtype Model[Container] or Object[Container] or a prepared sample or {Index, Container} or Null.

Index Matches to: Sample

FilterAliquotDestinationWell

The desired position in the corresponding AliquotContainer in which the aliquot samples will be placed.

Default Value: Automatic

Default Calculation: Automatically resolves to A1 in containers with only one position. For plates, fills wells in the order provided by the function AllWells.

Pattern Description: Any well from A1 to H12 or Null.

Programmatic Pattern: ((Null | WellPositionP) | Automatic) | Null

Index Matches to: Sample

Default Value: Automatic

Pattern Description: All or Count or Count or Mass or Volume or Null.

Index Matches to: Sample

TargetConcentration

Default Value: Automatic

Default Calculation: Automatically calculated based on aliquot and buffer volumes.

Pattern Description: Greater than 0 molar or greater than 0 grams per liter or Null.

Programmatic Pattern: ((Null | (GreaterP[0*Molar] | GreaterP[0*(Gram/Liter)])) | Automatic) | Null

Index Matches to: Sample

TargetConcentrationAnalyte

The substance whose final concentration is attained with the TargetConcentration option.

Default Value: Automatic

Programmatic Pattern: ((Null | ObjectP[IdentityModelTypes]) | Automatic) | Null

Index Matches to: Sample

AssayVolume

The desired total volume of the aliquoted sample plus dilution buffer.

Default Value: Automatic

Default Calculation: Automatically determined based on Volume and TargetConcentration option values.

Pattern Description: Greater than or equal to 1 microliter and less than or equal to 20 liters or Null.

Programmatic Pattern: ((Null | RangeP[1*Microliter, 20*Liter]) | Automatic) | Null

Index Matches to: Sample

The buffer that should be added to any aliquots requiring dilution, where the volume of this buffer added is the difference between the AliquotAmount and the total AssayVolume.

Default Value: Automatic

Default Calculation: Automatically resolves to Model[Sample, "Milli-Q water"] if ConcentratedBuffer is not specified; otherwise, resolves to Null.

Pattern Description: An object of type or subtype Model[Sample] or Object[Sample] or a prepared sample or Null.

Programmatic Pattern: ((Null | (ObjectP[{Model[Sample], Object[Sample]}] | _String)) | Automatic) | Null

Index Matches to: Sample

AliquotSampleStorageCondition

The non-default conditions under which any aliquot samples generated by this experiment should be stored after the protocol is completed.

Default Value: Automatic

Programmatic Pattern: ((Null | (SampleStorageTypeP | Disposal)) | Automatic) | Null

Index Matches to: Sample

DestinationWell

The desired position in the corresponding AliquotContainer in which the aliquot samples will be placed.

Default Value: Automatic

Default Calculation: Automatically resolves to A1 in containers with only one position. For plates, fills wells in the order provided by the function AllWells.

Pattern Description: Any well from A1 to H12 or list of one or more any well from A1 to H12 or any well from A1 to H12 entries or Null.

Programmatic Pattern: ((WellPositionP | {((Automatic | Null) | WellPositionP)..}) | Automatic) | Null

AliquotContainer

Default Value: Automatic

AliquotPreparation

Indicates the desired scale at which liquid handling used to generate aliquots will occur.

Default Value: Automatic

Default Calculation: Automatic resolution will occur based on manipulation volumes and container types.

Pattern Description: Manual or Robotic or Null.

Programmatic Pattern: (PreparationMethodP | Automatic) | Null

ConsolidateAliquots

Indicates if identical aliquots should be prepared in the same container/position.

Default Value: Automatic

Pattern Description: False or Null.

Programmatic Pattern: (False | Automatic) | Null

Optics

Instrument

The plate reader used to measure luminescence intensity.

Default Value: Automatic

Default Calculation: The first plate reader model capable of providing the requested wavelengths is used.

Pattern Description: An object of type or subtype Model[Instrument, PlateReader] or Object[Instrument, PlateReader]

Programmatic Pattern: ObjectP[{Model[Instrument, PlateReader], Object[Instrument, PlateReader]}] | Automatic

The distance from the bottom of the plate carrier to the focal point where light from the sample is directed onto the detector. If set to Auto the height which corresponds to the highest AdjustmentSample signal will be used.

Default Value: Automatic

Default Calculation: If an adjustment sample is provided the height which corresponds to the highest AdjustmentSample signal will be used (as indicated by Auto). Otherwise defaults to 7 Millimeter.

Pattern Description: Auto or greater than or equal to 0 millimeters and less than or equal to 25 millimeters or Null.

Programmatic Pattern: ((RangeP[0*Millimeter, 25*Millimeter] | Auto) | Automatic) | Null

Sampling

SamplingPattern

Indicates where in the well measurements are taken.

Default Value: Automatic

Pattern Description: Matrix, Spiral, Ring, or Center.

Programmatic Pattern: PlateReaderSamplingP | Automatic

SamplingDistance

Indicates the length of the region over which sampling measurements are taken.

Default Value: Automatic

Default Calculation: Automatically resolves to Null if SamplingPattern is set to Center otherwise resolves to 80% of the diameter of the well.

Pattern Description: Greater than or equal to 1 millimeter and less than or equal to 6 millimeters or Null.

Programmatic Pattern: (RangeP[1*Millimeter, 6*Millimeter] | Automatic) | Null

SamplingDimension

Specifies the size of the grid used for Matrix sampling. For example SamplingDimension->5 will scan a 5 x 5 grid.

Default Value: Automatic

Default Calculation: If the SamplingPattern is set to Matrix, SamplingDimension will be set to 3.

Pattern Description: Greater than or equal to 2 and less than or equal to 30 or Null.

Programmatic Pattern: (RangeP[2, 30] | Automatic) | Null

LuminescenceIntensity

Options

The options that specify the parameters of this unit operation.

Pattern: {_Rule..}

General

Sample

The samples that will be measured by the plate reader instrument.

Default Value: Null

Pattern Description: Container with Well Position or Sample or Container or Null.

Index Matches to: Sample

RetainCover

Default Value: False

Pattern Description: True or False.

Programmatic Pattern: BooleanP

Preparation

Default Value: Automatic

Pattern Description: Manual or Robotic.

Programmatic Pattern: PreparationMethodP | Automatic

WorkCell

Indicates the work cell that this primitive will be run on if Preparation->Robotic.

Default Value: Automatic

Default Calculation: Automatically set to STAR if Preparation->Robotic.

Pattern Description: STAR, bioSTAR, or microbioSTAR or Null.

Programmatic Pattern: ((STAR | bioSTAR | microbioSTAR) | Automatic) | Null

The temperature at which the plate reader chamber should be held.

Default Value: Ambient

Pattern Description: Ambient or greater than or equal to 25 degrees Celsius and less than or equal to 45 degrees Celsius.

Programmatic Pattern: RangeP[$AmbientTemperature, 45*Celsius] | Ambient

EquilibrationTime

The length of time for which the assay plates should equilibrate at the requested temperature in the plate reader before being read.

Default Value: Automatic

Default Calculation: Defaults to 0 Second if Temperature is set to Ambient. Otherwise defaults to 5 Minute.

Pattern Description: Greater than or equal to 0 minutes and less than or equal to 1 hour.

Programmatic Pattern: RangeP[0*Minute, 1*Hour] | Automatic

TargetCarbonDioxideLevel

The target amount of carbon dioxide in the atmosphere in the plate reader chamber.

Default Value: Automatic

Default Calculation: Automatically set to 5% for mammalian cells, and Null otherwise.

Pattern Description: Greater than or equal to 0.1 percent and less than or equal to 20 percent or Null.

Programmatic Pattern: (RangeP[0.1*Percent, 20*Percent] | Automatic) | Null

TargetOxygenLevel

Default Value: Null

Pattern Description: Greater than or equal to 0.1 percent and less than or equal to 20 percent or Null.

Programmatic Pattern: RangeP[0.1*Percent, 20*Percent] | Null

AtmosphereEquilibrationTime

The length of time for which the samples equilibrate at the requested oxygen and carbon dioxide level before being read.

Default Value: Automatic

Default Calculation: Automatically set to 5 Minute if TargetCarbonDioxideLevel or TargetOxygenLevel is specified. Otherwise, set to Null.

Pattern Description: Greater than or equal to 0 seconds and less than or equal to 24 hours or Null.

Programmatic Pattern: (RangeP[0*Second, 24*Hour] | Automatic) | Null

PrimaryInjectionFlowRate

The speed at which to transfer injection samples into the assay plate in the first round of injections.

Default Value: Automatic

Default Calculation: Defaults to 300 Microliter/Second if primary injections are specified.

Programmatic Pattern: (BMGFlowRateP | Automatic) | Null

Indicate the plate path the instrument should follow as it measures luminescence in each well, for instance reading all wells in a row before continuing on to the next row (Row).

Default Value: Row

Pattern Description: Row, Column, SerpentineRow, or SerpentineColumn.

Programmatic Pattern: ReadDirectionP

MoatSize

Indicates the number of concentric perimeters of wells which should be should be filled with MoatBuffer in order to decrease evaporation from the assay samples during the run.

Default Value: Automatic

Default Calculation: Defaults to 1 if any other moat options are specified.

Pattern Description: Greater than 0 in increments of 1 or Null.

Programmatic Pattern: (GreaterP[0, 1] | Automatic) | Null

MoatVolume

Indicates the volume which should be added to each moat well.

Default Value: Automatic

Default Calculation: Defaults to the min volume of the assay plate if any other moat options are specified.

Pattern Description: Greater than 0 microliters or Null.

Programmatic Pattern: (GreaterP[0*Microliter] | Automatic) | Null

MoatBuffer

Indicates the buffer which should be used to fill each moat well.

Default Value: Automatic

Default Calculation: Defaults to Milli-Q water if any other moat options are specified.

Pattern Description: An object of type or subtype Object[Sample] or Model[Sample] or a prepared sample or Null.

Programmatic Pattern: ((ObjectP[{Object[Sample], Model[Sample]}] | _String) | Automatic) | Null

InjectionSampleStorageCondition

The non-default conditions under which any injection samples used by this experiment should be stored after the protocol is completed.

Default Value: Null

Programmatic Pattern: (SampleStorageTypeP | Disposal) | Null

Post Experiment

SamplesInStorageCondition

Default Value: Null

Programmatic Pattern: (Null | (Alternatives[SampleStorageTypeP | Disposal])) | Null

Index Matches to: Sample

MeasureWeight

Default Value: Automatic

Pattern Description: True or False or Null.

Programmatic Pattern: (BooleanP | Automatic) | Null

MeasureVolume

Default Value: Automatic

Pattern Description: True or False or Null.

Programmatic Pattern: (BooleanP | Automatic) | Null

ImageSample

Default Value: Automatic

Default Calculation: Automatically resolves to True if any Mix related options are set. Otherwise, resolves to False.

Pattern Description: True or False or Null.

Programmatic Pattern: ((Null | BooleanP) | Automatic) | Null

Index Matches to: Sample

MixType

Indicates the style of motion used to mix the sample, prior to starting the experiment.

The instrument that should be used to perform the filtration.

Default Value: Automatic

Default Calculation: Will automatically resolved to an instrument appropriate for the filtration type.

Index Matches to: Sample

Filter

The filter that should be used to remove impurities from the SamplesIn prior to starting the experiment.

Default Value: Automatic

Default Calculation: Will automatically resolve to a filter appropriate for the filtration type and instrument.

Pattern Description: An object of type or subtype Model[Container, Plate, Filter], Model[Container, Vessel, Filter], or Model[Item, Filter] or Null.

Programmatic Pattern: ((Null | ObjectP[{Model[Container, Plate, Filter], Model[Container, Vessel, Filter], Model[Item, Filter]}]) | Automatic) | Null

Index Matches to: Sample

FilterMaterial

The membrane material of the filter that should be used to remove impurities from the SamplesIn prior to starting the experiment.

Default Value: Automatic

Default Calculation: Resolves to an appropriate filter material for the given sample is Filtration is set to True.

Programmatic Pattern: ((Null | FilterMembraneMaterialP) | Automatic) | Null

Index Matches to: Sample

PrefilterMaterial

The material from which the prefilter filtration membrane should be made of to remove impurities from the SamplesIn prior to starting the experiment.

Default Value: Automatic

Default Calculation: By default, no prefiltration is performed on samples, even when Filter->True.

Programmatic Pattern: ((Null | FilterMembraneMaterialP) | Automatic) | Null

Index Matches to: Sample

FilterPoreSize

The pore size of the filter that should be used when removing impurities from the SamplesIn prior to starting the experiment.

Default Value: Automatic

Default Calculation: Resolves to an appropriate filter pore size for the given sample is Filtration is set to True.

Programmatic Pattern: ((Null | FilterSizeP) | Automatic) | Null

Index Matches to: Sample

The desired container filtered samples should be produced in or transferred into by the end of filtration, with indices indicating grouping of samples in the same plates, if desired.

Default Value: Automatic

Default Calculation: Automatically set as the PreferredContainer for the Volume of the sample. For plates, attempts to fill all wells of a single plate with the same model before using another one.

Pattern Description: An object of type or subtype Model[Container] or Object[Container] or a prepared sample or {Index, Container} or Null.

Index Matches to: Sample

FilterAliquotDestinationWell

The desired position in the corresponding AliquotContainer in which the aliquot samples will be placed.

Default Value: Automatic

Default Calculation: Automatically resolves to A1 in containers with only one position. For plates, fills wells in the order provided by the function AllWells.

Pattern Description: Any well from A1 to H12 or Null.

Programmatic Pattern: ((Null | WellPositionP) | Automatic) | Null

Index Matches to: Sample

Default Value: Automatic

Pattern Description: All or Count or Count or Mass or Volume or Null.

Index Matches to: Sample

TargetConcentration

Default Value: Automatic

Default Calculation: Automatically calculated based on aliquot and buffer volumes.

Pattern Description: Greater than 0 molar or greater than 0 grams per liter or Null.

Programmatic Pattern: ((Null | (GreaterP[0*Molar] | GreaterP[0*(Gram/Liter)])) | Automatic) | Null

Index Matches to: Sample

TargetConcentrationAnalyte

The substance whose final concentration is attained with the TargetConcentration option.

Default Value: Automatic

Programmatic Pattern: ((Null | ObjectP[IdentityModelTypes]) | Automatic) | Null

Index Matches to: Sample

AssayVolume

The desired total volume of the aliquoted sample plus dilution buffer.

Default Value: Automatic

Default Calculation: Automatically determined based on Volume and TargetConcentration option values.

Pattern Description: Greater than or equal to 1 microliter and less than or equal to 20 liters or Null.

Programmatic Pattern: ((Null | RangeP[1*Microliter, 20*Liter]) | Automatic) | Null

Index Matches to: Sample

The buffer that should be added to any aliquots requiring dilution, where the volume of this buffer added is the difference between the AliquotAmount and the total AssayVolume.

Default Value: Automatic

Default Calculation: Automatically resolves to Model[Sample, "Milli-Q water"] if ConcentratedBuffer is not specified; otherwise, resolves to Null.

Pattern Description: An object of type or subtype Model[Sample] or Object[Sample] or a prepared sample or Null.

Programmatic Pattern: ((Null | (ObjectP[{Model[Sample], Object[Sample]}] | _String)) | Automatic) | Null

Index Matches to: Sample

AliquotSampleStorageCondition

The non-default conditions under which any aliquot samples generated by this experiment should be stored after the protocol is completed.

Default Value: Automatic

Programmatic Pattern: ((Null | (SampleStorageTypeP | Disposal)) | Automatic) | Null

Index Matches to: Sample

DestinationWell

The desired position in the corresponding AliquotContainer in which the aliquot samples will be placed.

Default Value: Automatic

Default Calculation: Automatically resolves to A1 in containers with only one position. For plates, fills wells in the order provided by the function AllWells.

Pattern Description: Any well from A1 to H12 or list of one or more any well from A1 to H12 or any well from A1 to H12 entries or Null.

Programmatic Pattern: ((WellPositionP | {((Automatic | Null) | WellPositionP)..}) | Automatic) | Null

AliquotContainer

Default Value: Automatic

AliquotPreparation

Indicates the desired scale at which liquid handling used to generate aliquots will occur.

Default Value: Automatic

Default Calculation: Automatic resolution will occur based on manipulation volumes and container types.

Pattern Description: Manual or Robotic or Null.

Programmatic Pattern: (PreparationMethodP | Automatic) | Null

Index Matches to: EmissionWavelength

AdjustmentSample

Default Value: Automatic

Pattern Description: An object of type or subtype Object[Sample] or a prepared sample or FullPlate or {Index, Sample} or Null.

Programmatic Pattern: ((FullPlate | (ObjectP[Object[Sample]] | _String) | {RangeP[1, 384, 1], ObjectP[Object[Sample]] | _String}) | Automatic) | Null

Index Matches to: EmissionWavelength

FocalHeight

Default Value: Automatic

Default Calculation: If an adjustment sample is provided the height which corresponds to the highest AdjustmentSample signal will be used (as indicated by Auto). Otherwise defaults to 7 Millimeter.

Pattern Description: Auto or greater than or equal to 0 millimeters and less than or equal to 25 millimeters or Null.

Programmatic Pattern: ((RangeP[0*Millimeter, 25*Millimeter] | Auto) | Automatic) | Null

The plate reader used to measure luminescence intensity.

Default Value: Automatic

Default Calculation: The first plate reader model capable of providing the requested wavelengths is used.

Pattern Description: An object of type or subtype Model[Instrument, PlateReader] or Object[Instrument, PlateReader]

Programmatic Pattern: ObjectP[{Model[Instrument, PlateReader], Object[Instrument, PlateReader]}] | Automatic

IntegrationTime

The amount of time over which luminescence measurements should be integrated. Select a higher time to increase the reading intensity.

Default Value: 1 second

Pattern Description: Greater than or equal to 0.01 seconds and less than or equal to 100 seconds or Null.

Programmatic Pattern: RangeP[0.01*Second, 100*Second] | Null

ReadLocation

Indicates if luminescence is measured using an optic above the plate or one below the plate.

Default Value: Automatic

Default Calculation: Defaults to Bottom if RetainCover is set to True, otherwise defaults to Top.

Pattern Description: Top or Bottom.

Programmatic Pattern: ReadLocationP | Automatic

Sampling

SamplingPattern

Indicates where in the well measurements are taken.

Default Value: Automatic

Pattern Description: Matrix, Spiral, Ring, or Center.

Programmatic Pattern: PlateReaderSamplingP | Automatic

SamplingDistance

Indicates the length of the region over which sampling measurements are taken.

Default Value: Automatic

Default Calculation: Automatically resolves to Null if SamplingPattern is set to Center otherwise resolves to 80% of the diameter of the well.

Pattern Description: Greater than or equal to 1 millimeter and less than or equal to 6 millimeters or Null.

Programmatic Pattern: (RangeP[1*Millimeter, 6*Millimeter] | Automatic) | Null

SamplingDimension

Specifies the size of the grid used for Matrix sampling. For example SamplingDimension->5 will scan a 5 x 5 grid.

Default Value: Automatic

Default Calculation: If the SamplingPattern is set to Matrix, SamplingDimension will be set to 3.

Pattern Description: Greater than or equal to 2 and less than or equal to 30 or Null.

Programmatic Pattern: (RangeP[2, 30] | Automatic) | Null

LuminescenceKinetics

Options

The options that specify the parameters of this unit operation.

Pattern: {_Rule..}

General

Sample

The samples that will be measured by the plate reader instrument.

Default Value: Null

Pattern Description: Container with Well Position or Sample or Container or Null.

Index Matches to: Sample

RetainCover

Default Value: False

Pattern Description: True or False.

Programmatic Pattern: BooleanP

Preparation

Default Value: Automatic

Pattern Description: Manual or Robotic.

Programmatic Pattern: PreparationMethodP | Automatic

WorkCell

Indicates the work cell that this primitive will be run on if Preparation->Robotic.

Default Value: Automatic

Default Calculation: Automatically set to STAR if Preparation->Robotic.

Pattern Description: STAR, bioSTAR, or microbioSTAR or Null.

Programmatic Pattern: ((STAR | bioSTAR | microbioSTAR) | Automatic) | Null

NumberOfReplicates

Number of times each of the input samples should be analyzed using identical experimental parameters.

The amount of the tertiary sample which should be injected in the third round of injections.

Default Value: Null

Pattern Description: Greater than or equal to 0.5 microliters and less than or equal to 300 microliters or Null.

Programmatic Pattern: (Null | RangeP[0.5*Microliter, 300*Microliter]) | Null

Index Matches to: Sample

QuaternaryInjectionVolume

The amount of the quaternary sample which should be injected in the fourth round of injections.

Default Value: Null

Pattern Description: Greater than or equal to 0.5 microliters and less than or equal to 300 microliters or Null.

Programmatic Pattern: (Null | RangeP[0.5*Microliter, 300*Microliter]) | Null

Index Matches to: Sample

TargetCarbonDioxideLevel

The target amount of carbon dioxide in the atmosphere in the plate reader chamber.

Default Value: Automatic

Default Calculation: Automatically set to 5% for mammalian cells, and Null otherwise.

Pattern Description: Greater than or equal to 0.1 percent and less than or equal to 20 percent or Null.

Programmatic Pattern: (RangeP[0.1*Percent, 20*Percent] | Automatic) | Null

TargetOxygenLevel

Default Value: Null

Pattern Description: Greater than or equal to 0.1 percent and less than or equal to 20 percent or Null.

Programmatic Pattern: RangeP[0.1*Percent, 20*Percent] | Null

AtmosphereEquilibrationTime

The length of time for which the samples equilibrate at the requested oxygen and carbon dioxide level before being read.

Default Value: Automatic

Default Calculation: Automatically set to 5 Minute if TargetCarbonDioxideLevel or TargetOxygenLevel is specified. Otherwise, set to Null.

Pattern Description: Greater than or equal to 0 seconds and less than or equal to 24 hours or Null.

Programmatic Pattern: (RangeP[0*Second, 24*Hour] | Automatic) | Null

PrimaryInjectionFlowRate

The speed at which to transfer injection samples into the assay plate in the first round of injections.

Default Value: Automatic

Default Calculation: Defaults to 300 Microliter/Second if primary injections are specified.

Programmatic Pattern: (BMGFlowRateP | Automatic) | Null

Indicate the plate path the instrument should follow as it measures luminescence in each well, for instance reading all wells in a row before continuing on to the next row (Row).

Default Value: Row

Pattern Description: Row, Column, SerpentineRow, or SerpentineColumn.

Programmatic Pattern: ReadDirectionP

MoatSize

Indicates the number of concentric perimeters of wells which should be should be filled with MoatBuffer in order to decrease evaporation from the assay samples during the run.

Default Value: Automatic

Default Calculation: Defaults to 1 if any other moat options are specified.

Pattern Description: Greater than 0 in increments of 1 or Null.

Programmatic Pattern: (GreaterP[0, 1] | Automatic) | Null

MoatVolume

Indicates the volume which should be added to each moat well.

Default Value: Automatic

Default Calculation: Defaults to the min volume of the assay plate if any other moat options are specified.

Pattern Description: Greater than 0 microliters or Null.

Programmatic Pattern: (GreaterP[0*Microliter] | Automatic) | Null

MoatBuffer

Indicates the buffer which should be used to fill each moat well.

Default Value: Automatic

Default Calculation: Defaults to Milli-Q water if any other moat options are specified.

Pattern Description: An object of type or subtype Object[Sample] or Model[Sample] or a prepared sample or Null.

Programmatic Pattern: ((ObjectP[{Object[Sample], Model[Sample]}] | _String) | Automatic) | Null

InjectionSampleStorageCondition

The non-default conditions under which any injection samples used by this experiment should be stored after the protocol is completed.

Default Value: Null

Programmatic Pattern: (SampleStorageTypeP | Disposal) | Null

Post Experiment

SamplesInStorageCondition

Default Value: Null

Programmatic Pattern: (Null | (Alternatives[SampleStorageTypeP | Disposal])) | Null

Index Matches to: Sample

MeasureWeight

Default Value: Automatic

Pattern Description: True or False or Null.

Programmatic Pattern: (BooleanP | Automatic) | Null

MeasureVolume

Default Value: Automatic

Pattern Description: True or False or Null.

Programmatic Pattern: (BooleanP | Automatic) | Null

ImageSample

Default Value: Automatic

Default Calculation: Automatically resolves to True if any Mix related options are set. Otherwise, resolves to False.

Pattern Description: True or False or Null.

Programmatic Pattern: ((Null | BooleanP) | Automatic) | Null

Index Matches to: Sample

MixType

Indicates the style of motion used to mix the sample, prior to starting the experiment.

The instrument that should be used to perform the filtration.

Default Value: Automatic

Default Calculation: Will automatically resolved to an instrument appropriate for the filtration type.

Index Matches to: Sample

Filter

The filter that should be used to remove impurities from the SamplesIn prior to starting the experiment.

Default Value: Automatic

Default Calculation: Will automatically resolve to a filter appropriate for the filtration type and instrument.

Pattern Description: An object of type or subtype Model[Container, Plate, Filter], Model[Container, Vessel, Filter], or Model[Item, Filter] or Null.

Programmatic Pattern: ((Null | ObjectP[{Model[Container, Plate, Filter], Model[Container, Vessel, Filter], Model[Item, Filter]}]) | Automatic) | Null

Index Matches to: Sample

FilterMaterial

The membrane material of the filter that should be used to remove impurities from the SamplesIn prior to starting the experiment.

Default Value: Automatic

Default Calculation: Resolves to an appropriate filter material for the given sample is Filtration is set to True.

Programmatic Pattern: ((Null | FilterMembraneMaterialP) | Automatic) | Null

Index Matches to: Sample

PrefilterMaterial

The material from which the prefilter filtration membrane should be made of to remove impurities from the SamplesIn prior to starting the experiment.

Default Value: Automatic

Default Calculation: By default, no prefiltration is performed on samples, even when Filter->True.

Programmatic Pattern: ((Null | FilterMembraneMaterialP) | Automatic) | Null

Index Matches to: Sample

FilterPoreSize

The pore size of the filter that should be used when removing impurities from the SamplesIn prior to starting the experiment.

Default Value: Automatic

Default Calculation: Resolves to an appropriate filter pore size for the given sample is Filtration is set to True.

Programmatic Pattern: ((Null | FilterSizeP) | Automatic) | Null

Index Matches to: Sample

The desired container filtered samples should be produced in or transferred into by the end of filtration, with indices indicating grouping of samples in the same plates, if desired.

Default Value: Automatic

Default Calculation: Automatically set as the PreferredContainer for the Volume of the sample. For plates, attempts to fill all wells of a single plate with the same model before using another one.

Pattern Description: An object of type or subtype Model[Container] or Object[Container] or a prepared sample or {Index, Container} or Null.

Index Matches to: Sample

FilterAliquotDestinationWell

The desired position in the corresponding AliquotContainer in which the aliquot samples will be placed.

Default Value: Automatic

Default Calculation: Automatically resolves to A1 in containers with only one position. For plates, fills wells in the order provided by the function AllWells.

Pattern Description: Any well from A1 to H12 or Null.

Programmatic Pattern: ((Null | WellPositionP) | Automatic) | Null

Index Matches to: Sample

Default Value: Automatic

Pattern Description: All or Count or Count or Mass or Volume or Null.

Index Matches to: Sample

TargetConcentration

Default Value: Automatic

Default Calculation: Automatically calculated based on aliquot and buffer volumes.

Pattern Description: Greater than 0 molar or greater than 0 grams per liter or Null.

Programmatic Pattern: ((Null | (GreaterP[0*Molar] | GreaterP[0*(Gram/Liter)])) | Automatic) | Null

Index Matches to: Sample

TargetConcentrationAnalyte

The substance whose final concentration is attained with the TargetConcentration option.

Default Value: Automatic

Programmatic Pattern: ((Null | ObjectP[IdentityModelTypes]) | Automatic) | Null

Index Matches to: Sample

AssayVolume

The desired total volume of the aliquoted sample plus dilution buffer.

Default Value: Automatic

Default Calculation: Automatically determined based on Volume and TargetConcentration option values.

Pattern Description: Greater than or equal to 1 microliter and less than or equal to 20 liters or Null.

Programmatic Pattern: ((Null | RangeP[1*Microliter, 20*Liter]) | Automatic) | Null

Index Matches to: Sample

The buffer that should be added to any aliquots requiring dilution, where the volume of this buffer added is the difference between the AliquotAmount and the total AssayVolume.

Default Value: Automatic

Default Calculation: Automatically resolves to Model[Sample, "Milli-Q water"] if ConcentratedBuffer is not specified; otherwise, resolves to Null.

Pattern Description: An object of type or subtype Model[Sample] or Object[Sample] or a prepared sample or Null.

Programmatic Pattern: ((Null | (ObjectP[{Model[Sample], Object[Sample]}] | _String)) | Automatic) | Null

Index Matches to: Sample

AliquotSampleStorageCondition

The non-default conditions under which any aliquot samples generated by this experiment should be stored after the protocol is completed.

Default Value: Automatic

Programmatic Pattern: ((Null | (SampleStorageTypeP | Disposal)) | Automatic) | Null

Index Matches to: Sample

DestinationWell

The desired position in the corresponding AliquotContainer in which the aliquot samples will be placed.

Default Value: Automatic

Default Calculation: Automatically resolves to A1 in containers with only one position. For plates, fills wells in the order provided by the function AllWells.

Pattern Description: Any well from A1 to H12 or list of one or more any well from A1 to H12 or any well from A1 to H12 entries or Null.

Programmatic Pattern: ((WellPositionP | {((Automatic | Null) | WellPositionP)..}) | Automatic) | Null

AliquotContainer

Pattern Description: Greater than or equal to 320 nanometers and less than or equal to 740 nanometers or NoFilter or Null.

Programmatic Pattern: ((RangeP[320*Nanometer, 740*Nanometer] | NoFilter) | Automatic) | Null

Index Matches to: EmissionWavelength

AdjustmentSample

Default Value: Automatic

Pattern Description: An object of type or subtype Object[Sample] or a prepared sample or FullPlate or {Index, Sample} or Null.

Programmatic Pattern: ((FullPlate | (ObjectP[Object[Sample]] | _String) | {RangeP[1, 384, 1], ObjectP[Object[Sample]] | _String}) | Automatic) | Null

Index Matches to: EmissionWavelength

FocalHeight

Default Value: Automatic

Default Calculation: If an adjustment sample is provided the height which corresponds to the highest AdjustmentSample signal will be used (as indicated by Auto). Otherwise defaults to 7 Millimeter.

Pattern Description: Auto or greater than or equal to 0 millimeters and less than or equal to 25 millimeters or Null.

Programmatic Pattern: ((RangeP[0*Millimeter, 25*Millimeter] | Auto) | Automatic) | Null

Index Matches to: EmissionWavelength

Gain

Default Value: Automatic

Pattern Description: Greater than or equal to 1 microvolt and less than or equal to 4095 microvolts or greater than or equal to 1 percent and less than or equal to 95 percent.

Programmatic Pattern: (RangeP[1*Percent, 95*Percent] | RangeP[1*Microvolt, 4095*Microvolt]) | Automatic

Index Matches to: EmissionWavelength

DualEmissionWavelength

The wavelength at which luminescence emitted from the sample should be measured with the secondary detector (simultaneous to the measurement at the emission wavelength done by the primary detector).

Default Value: Automatic

Default Calculation: Uses the second emission wavelength provided by the optic module being used.

Pattern Description: Greater than or equal to 320 nanometers and less than or equal to 740 nanometers or Null.

Programmatic Pattern: (RangeP[320*Nanometer, 740*Nanometer] | Automatic) | Null

Index Matches to: EmissionWavelength

DualEmissionGain

Default Value: Automatic

Pattern Description: Greater than or equal to 1 microvolt and less than or equal to 4095 microvolts or greater than or equal to 1 percent and less than or equal to 95 percent or Null.

Programmatic Pattern: ((RangeP[1*Percent, 95*Percent] | RangeP[1*Microvolt, 4095*Microvolt]) | Automatic) | Null

Index Matches to: EmissionWavelength

Instrument

The plate reader used to measure luminescence intensity.

Default Value: Automatic

Default Calculation: The first plate reader model capable of providing the requested wavelengths is used.

Pattern Description: An object of type or subtype Model[Instrument, PlateReader] or Object[Instrument, PlateReader]

Programmatic Pattern: ObjectP[{Model[Instrument, PlateReader], Object[Instrument, PlateReader]}] | Automatic

IntegrationTime

The amount of time over which luminescence measurements should be integrated. Select a higher time to increase the reading intensity.

Default Value: 1 second

Pattern Description: Greater than or equal to 0.01 seconds and less than or equal to 100 seconds or Null.

Programmatic Pattern: RangeP[0.01*Second, 100*Second] | Null

ReadLocation

Indicates if luminescence is measured using an optic above the plate or one below the plate.

Default Value: Automatic

Default Calculation: Defaults to Bottom if RetainCover is set to True, otherwise defaults to Top.

Pattern Description: Top or Bottom.

Programmatic Pattern: ReadLocationP | Automatic

Sampling

SamplingPattern

Indicates where in the well measurements are taken.

Default Value: Automatic

Pattern Description: Matrix, Spiral, Ring, or Center.

Programmatic Pattern: PlateReaderSamplingP | Automatic

SamplingDistance

Indicates the length of the region over which sampling measurements are taken.

Default Value: Automatic

Default Calculation: Automatically resolves to Null if SamplingPattern is set to Center otherwise resolves to 80% of the diameter of the well.

Pattern Description: Greater than or equal to 1 millimeter and less than or equal to 6 millimeters or Null.

Programmatic Pattern: (RangeP[1*Millimeter, 6*Millimeter] | Automatic) | Null

SamplingDimension

Specifies the size of the grid used for Matrix sampling. For example SamplingDimension->5 will scan a 5 x 5 grid.

Default Value: Automatic

Default Calculation: If the SamplingPattern is set to Matrix, SamplingDimension will be set to 3.

Pattern Description: Greater than or equal to 2 and less than or equal to 30 or Null.

Programmatic Pattern: (RangeP[2, 30] | Automatic) | Null

FluorescenceSpectroscopy

Options

The options that specify the parameters of this unit operation.

Pattern: {_Rule..}

General

Sample

The samples that will be measured by the plate reader instrument.

Default Value: Null

Pattern Description: Container with Well Position or Sample or Container or Null.

Index Matches to: Sample

Default Value: Automatic

Pattern Description: Manual or Robotic.

Programmatic Pattern: PreparationMethodP | Automatic

NumberOfReplicates

Number of times each of the input samples should be analyzed using identical experimental parameters.

Default Value: Null

Pattern Description: Greater than or equal to 2 in increments of 1 or Null.

Programmatic Pattern: GreaterEqualP[2, 1] | Null

ExcitationScanGain

The gain which should be applied to the signal reaching the primary detector during the excitation scan. This may be specified either as a direct voltage, or as a percentage (which indicates that the gain should be set such that the AdjustmentSample fluoresces at that percentage of the instrument's dynamic range).

Default Value: Automatic

Default Calculation: If unspecified defaults to 90% if an adjustment sample is provided or if the instrument can scan the entire plate to determine gain. Otherwise defaults to 2500 Microvolt

Pattern Description: Greater than or equal to 0 microvolts and less than or equal to 4095 microvolts or greater than or equal to 0 percent and less than or equal to 95 percent or Null.

Programmatic Pattern: ((RangeP[0*Percent, 95*Percent] | RangeP[0*Microvolt, 4095*Microvolt]) | Automatic) | Null

EmissionScanGain

The gain which should be applied to the signal reaching the primary detector during the emission scan. This may be specified either as a direct voltage, or as a percentage (which indicates that the gain should be set such that the AdjustmentSample fluoresces at that percentage of the instrument's dynamic range).

Default Value: Automatic

Default Calculation: If unspecified defaults to 90% if an adjustment sample is provided or if the instrument can scan the entire plate to determine gain. Otherwise defaults to 2500 Microvolt

Pattern Description: Greater than or equal to 0 microvolts and less than or equal to 4095 microvolts or greater than or equal to 0 percent and less than or equal to 95 percent or Null.

Programmatic Pattern: ((RangeP[0*Percent, 95*Percent] | RangeP[0*Microvolt, 4095*Microvolt]) | Automatic) | Null

AdjustmentSample

Pattern Description: Greater than 0 in increments of 1 or Null.

Programmatic Pattern: (GreaterP[0, 1] | Automatic) | Null

MoatVolume

Indicates the volume which should be added to each moat well.

Default Value: Automatic

Default Calculation: Automatically set to the RecommendedFillVolume of the assay plate if informed, or 75% of the MaxVolume of the assay plate if not, if any other moat options are specified.

Pattern Description: Greater than 0 microliters or Null.

Programmatic Pattern: (GreaterP[0*Microliter] | Automatic) | Null

MoatBuffer

Indicates the buffer which should be used to fill each moat well.

Default Value: Automatic

Pattern Description: An object of type or subtype Object[Sample] or Model[Sample] or a prepared sample or Null.

Programmatic Pattern: ((ObjectP[{Object[Sample], Model[Sample]}] | _String) | Automatic) | Null

PrimaryInjectionFlowRate

The speed at which to transfer injection samples into the assay plate in the first round of injections.

Default Value: Automatic

Default Calculation: Defaults to 300 Microliter/Second if primary injections are specified.

Programmatic Pattern: (BMGFlowRateP | Automatic) | Null

Indicates the order in which wells should be read by specifying the plate path the instrument should follow when measuring fluorescence.

Default Value: Row

Pattern Description: Row, Column, SerpentineRow, or SerpentineColumn.

Programmatic Pattern: ReadDirectionP

InjectionSampleStorageCondition

The non-default conditions under which any injection samples used by this experiment should be stored after the protocol is completed.

Default Value: Null

Programmatic Pattern: (SampleStorageTypeP | Disposal) | Null

TargetCarbonDioxideLevel

The target amount of carbon dioxide in the atmosphere in the plate reader chamber.

Default Value: Automatic

Default Calculation: Automatically set to 5% for mammalian cells, and Null otherwise.

Pattern Description: Greater than or equal to 0.1 percent and less than or equal to 20 percent or Null.

Programmatic Pattern: (RangeP[0.1*Percent, 20*Percent] | Automatic) | Null

TargetOxygenLevel

Default Value: Null

Pattern Description: Greater than or equal to 0.1 percent and less than or equal to 20 percent or Null.

Programmatic Pattern: RangeP[0.1*Percent, 20*Percent] | Null

AtmosphereEquilibrationTime

The length of time for which the samples equilibrate at the requested oxygen and carbon dioxide level before being read.

Default Value: Automatic

Default Calculation: Automatically set to 5 Minute if TargetCarbonDioxideLevel or TargetOxygenLevel is specified. Otherwise, set to Null.

Pattern Description: Greater than or equal to 0 seconds and less than or equal to 24 hours or Null.

Programmatic Pattern: (RangeP[0*Second, 24*Hour] | Automatic) | Null

Post Experiment

SamplesInStorageCondition

Default Value: Null

Programmatic Pattern: (Null | (Alternatives[SampleStorageTypeP | Disposal])) | Null

Index Matches to: Sample

MeasureWeight

Default Value: Automatic

Pattern Description: True or False or Null.

Programmatic Pattern: (BooleanP | Automatic) | Null

MeasureVolume

Default Value: Automatic

Pattern Description: True or False or Null.

Programmatic Pattern: (BooleanP | Automatic) | Null

ImageSample

Default Value: Automatic

Default Calculation: Automatically resolves to True if any Mix related options are set. Otherwise, resolves to False.

Pattern Description: True or False or Null.

Programmatic Pattern: ((Null | BooleanP) | Automatic) | Null

Index Matches to: Sample

MixType

Indicates the style of motion used to mix the sample, prior to starting the experiment.

The instrument that should be used to perform the filtration.

Default Value: Automatic

Default Calculation: Will automatically resolved to an instrument appropriate for the filtration type.

Index Matches to: Sample

Filter

The filter that should be used to remove impurities from the SamplesIn prior to starting the experiment.

Default Value: Automatic

Default Calculation: Will automatically resolve to a filter appropriate for the filtration type and instrument.

Pattern Description: An object of type or subtype Model[Container, Plate, Filter], Model[Container, Vessel, Filter], or Model[Item, Filter] or Null.

Programmatic Pattern: ((Null | ObjectP[{Model[Container, Plate, Filter], Model[Container, Vessel, Filter], Model[Item, Filter]}]) | Automatic) | Null

Index Matches to: Sample

FilterMaterial

The membrane material of the filter that should be used to remove impurities from the SamplesIn prior to starting the experiment.

Default Value: Automatic

Default Calculation: Resolves to an appropriate filter material for the given sample is Filtration is set to True.

Programmatic Pattern: ((Null | FilterMembraneMaterialP) | Automatic) | Null

Index Matches to: Sample

PrefilterMaterial

The material from which the prefilter filtration membrane should be made of to remove impurities from the SamplesIn prior to starting the experiment.

Default Value: Automatic

Default Calculation: By default, no prefiltration is performed on samples, even when Filter->True.

Programmatic Pattern: ((Null | FilterMembraneMaterialP) | Automatic) | Null

Index Matches to: Sample

FilterPoreSize

The pore size of the filter that should be used when removing impurities from the SamplesIn prior to starting the experiment.

Default Value: Automatic

Default Calculation: Resolves to an appropriate filter pore size for the given sample is Filtration is set to True.

Programmatic Pattern: ((Null | FilterSizeP) | Automatic) | Null

Index Matches to: Sample

The desired container filtered samples should be produced in or transferred into by the end of filtration, with indices indicating grouping of samples in the same plates, if desired.

Default Value: Automatic

Default Calculation: Automatically set as the PreferredContainer for the Volume of the sample. For plates, attempts to fill all wells of a single plate with the same model before using another one.

Pattern Description: An object of type or subtype Model[Container] or Object[Container] or a prepared sample or {Index, Container} or Null.

Index Matches to: Sample

FilterAliquotDestinationWell

The desired position in the corresponding AliquotContainer in which the aliquot samples will be placed.

Default Value: Automatic

Default Calculation: Automatically resolves to A1 in containers with only one position. For plates, fills wells in the order provided by the function AllWells.

Pattern Description: Any well from A1 to H12 or Null.

Programmatic Pattern: ((Null | WellPositionP) | Automatic) | Null

Index Matches to: Sample

Default Value: Automatic

Pattern Description: All or Count or Count or Mass or Volume or Null.

Index Matches to: Sample

TargetConcentration

Default Value: Automatic

Default Calculation: Automatically calculated based on aliquot and buffer volumes.

Pattern Description: Greater than 0 molar or greater than 0 grams per liter or Null.

Programmatic Pattern: ((Null | (GreaterP[0*Molar] | GreaterP[0*(Gram/Liter)])) | Automatic) | Null

Index Matches to: Sample

TargetConcentrationAnalyte

The substance whose final concentration is attained with the TargetConcentration option.

Default Value: Automatic

Programmatic Pattern: ((Null | ObjectP[IdentityModelTypes]) | Automatic) | Null

Index Matches to: Sample

AssayVolume

The desired total volume of the aliquoted sample plus dilution buffer.

Default Value: Automatic

Default Calculation: Automatically determined based on Volume and TargetConcentration option values.

Pattern Description: Greater than or equal to 1 microliter and less than or equal to 20 liters or Null.

Programmatic Pattern: ((Null | RangeP[1*Microliter, 20*Liter]) | Automatic) | Null

Index Matches to: Sample

The buffer that should be added to any aliquots requiring dilution, where the volume of this buffer added is the difference between the AliquotAmount and the total AssayVolume.

Default Value: Automatic

Default Calculation: Automatically resolves to Model[Sample, "Milli-Q water"] if ConcentratedBuffer is not specified; otherwise, resolves to Null.

Pattern Description: An object of type or subtype Model[Sample] or Object[Sample] or a prepared sample or Null.

Programmatic Pattern: ((Null | (ObjectP[{Model[Sample], Object[Sample]}] | _String)) | Automatic) | Null

Index Matches to: Sample

AliquotSampleStorageCondition

The non-default conditions under which any aliquot samples generated by this experiment should be stored after the protocol is completed.

Default Value: Automatic

Programmatic Pattern: ((Null | (SampleStorageTypeP | Disposal)) | Automatic) | Null

Index Matches to: Sample

DestinationWell

The desired position in the corresponding AliquotContainer in which the aliquot samples will be placed.

Default Value: Automatic

Default Calculation: Automatically resolves to A1 in containers with only one position. For plates, fills wells in the order provided by the function AllWells.

Pattern Description: Any well from A1 to H12 or list of one or more any well from A1 to H12 or any well from A1 to H12 entries or Null.

Programmatic Pattern: ((WellPositionP | {((Automatic | Null) | WellPositionP)..}) | Automatic) | Null

AliquotContainer

Default Value: Automatic

AliquotPreparation

Indicates the desired scale at which liquid handling used to generate aliquots will occur.

Default Value: Automatic

Default Calculation: Automatic resolution will occur based on manipulation volumes and container types.

Pattern Description: Manual or Robotic or Null.

Programmatic Pattern: (PreparationMethodP | Automatic) | Null

Options

The options that specify the parameters of this unit operation.

Pattern: {_Rule..}

General

Sample

The samples that will be measured by the plate reader instrument.

Default Value: Null

Pattern Description: Container with Well Position or Sample or Container or Null.

Index Matches to: Sample

Mode

The type of fluorescence reading which should be performed.

Default Value: Automatic

Pattern Description: Fluorescence or TimeResolvedFluorescence.

Programmatic Pattern: (Fluorescence | TimeResolvedFluorescence) | Automatic

WavelengthSelection

Indicates if the emission and excitation wavelengths should be obtained by filters or monochromators.

Default Value: Automatic

Pattern Description: Filters or Monochromators.

Programmatic Pattern: WavelengthSelectionP | Automatic

Gain

The gain which should be applied to the signal reaching the primary detector. This may be specified either as a direct voltage, or as a percentage (which indicates that the gain should be set such that the AdjustmentSample fluoresces at that percentage of the instrument's dynamic range).

Default Value: Automatic

Default Calculation: If unspecified defaults to 90% if an adjustment sample is provided or if the instrument can scan the entire plate to determine gain. Otherwise defaults to 2500 Microvolt

Pattern Description: Greater than or equal to 1 microvolt and less than or equal to 4095 microvolts or greater than or equal to 1 percent and less than or equal to 95 percent.

Programmatic Pattern: (RangeP[1*Percent, 95*Percent] | RangeP[1*Microvolt, 4095*Microvolt]) | Automatic

Index Matches to: ExcitationWavelength

DualEmissionGain

The gain to apply to the signal reaching the secondary detector. This may be specified either as a direct voltage, or as a percentage relative to the AdjustmentSample option.

Default Value: Automatic

Pattern Description: Greater than or equal to 1 microvolt and less than or equal to 4095 microvolts or greater than or equal to 1 percent and less than or equal to 95 percent or Null.

Programmatic Pattern: ((RangeP[1*Percent, 95*Percent] | RangeP[1*Microvolt, 4095*Microvolt]) | Automatic) | Null

Index Matches to: ExcitationWavelength

AdjustmentSample

Default Value: Automatic

Pattern Description: An object of type or subtype Object[Sample] or a prepared sample or FullPlate or {Index, Sample} or Null.

Programmatic Pattern: ((FullPlate | (ObjectP[Object[Sample]] | _String) | {RangeP[1, 384, 1], ObjectP[Object[Sample]] | _String}) | Automatic) | Null

Index Matches to: ExcitationWavelength

EquilibrationTime

The length of time for which the assay plates should equilibrate at the assay temperature in the plate reader before being read.

Default Value: Automatic

Default Calculation: Defaults to 0 Second if Temperature is set to Ambient. Otherwise defaults to 5 Minute.

Pattern Description: Greater than or equal to 0 minutes and less than or equal to 1 hour.

Programmatic Pattern: RangeP[0*Minute, 1*Hour] | Automatic

NumberOfReadings

Number of redundant readings which should be taken by the detector to determine a single averaged fluorescence intensity reading.

Default Value: 100

Pattern Description: Greater than or equal to 1 and less than or equal to 200.

Programmatic Pattern: RangeP[1, 200]

WorkCell

Indicates the work cell that this primitive will be run on if Preparation->Robotic.

Default Value: Automatic

Default Calculation: Automatically set to STAR if Preparation->Robotic.

Pattern Description: STAR, bioSTAR, or microbioSTAR or Null.

Programmatic Pattern: ((STAR | bioSTAR | microbioSTAR) | Automatic) | Null

Preparation

Pattern Description: Greater than 0 in increments of 1 or Null.

Programmatic Pattern: (GreaterP[0, 1] | Automatic) | Null

MoatVolume

Indicates the volume which should be added to each moat well.

Default Value: Automatic

Default Calculation: Automatically set to the RecommendedFillVolume of the assay plate if informed, or 75% of the MaxVolume of the assay plate if not, if any other moat options are specified.

Pattern Description: Greater than 0 microliters or Null.

Programmatic Pattern: (GreaterP[0*Microliter] | Automatic) | Null

MoatBuffer

Indicates the buffer which should be used to fill each moat well.

Default Value: Automatic

Pattern Description: An object of type or subtype Object[Sample] or Model[Sample] or a prepared sample or Null.

Programmatic Pattern: ((ObjectP[{Object[Sample], Model[Sample]}] | _String) | Automatic) | Null

PrimaryInjectionFlowRate

The speed at which to transfer injection samples into the assay plate in the first round of injections.

Default Value: Automatic

Default Calculation: Defaults to 300 Microliter/Second if primary injections are specified.

Programmatic Pattern: (BMGFlowRateP | Automatic) | Null

Indicates the order in which wells should be read by specifying the plate path the instrument should follow when measuring fluorescence.

Default Value: Row

Pattern Description: Row, Column, SerpentineRow, or SerpentineColumn.

Programmatic Pattern: ReadDirectionP

InjectionSampleStorageCondition

The non-default conditions under which any injection samples used by this experiment should be stored after the protocol is completed.

Default Value: Null

Programmatic Pattern: (SampleStorageTypeP | Disposal) | Null

TargetCarbonDioxideLevel

The target amount of carbon dioxide in the atmosphere in the plate reader chamber.

Default Value: Automatic

Default Calculation: Automatically set to 5% for mammalian cells, and Null otherwise.

Pattern Description: Greater than or equal to 0.1 percent and less than or equal to 20 percent or Null.

Programmatic Pattern: (RangeP[0.1*Percent, 20*Percent] | Automatic) | Null

TargetOxygenLevel

Default Value: Null

Pattern Description: Greater than or equal to 0.1 percent and less than or equal to 20 percent or Null.

Programmatic Pattern: RangeP[0.1*Percent, 20*Percent] | Null

AtmosphereEquilibrationTime

The length of time for which the samples equilibrate at the requested oxygen and carbon dioxide level before being read.

Default Value: Automatic

Default Calculation: Automatically set to 5 Minute if TargetCarbonDioxideLevel or TargetOxygenLevel is specified. Otherwise, set to Null.

Pattern Description: Greater than or equal to 0 seconds and less than or equal to 24 hours or Null.

Programmatic Pattern: (RangeP[0*Second, 24*Hour] | Automatic) | Null

Post Experiment

SamplesInStorageCondition

Default Value: Null

Programmatic Pattern: (Null | (Alternatives[SampleStorageTypeP | Disposal])) | Null

Index Matches to: Sample

MeasureWeight

Default Value: Automatic

Pattern Description: True or False or Null.

Programmatic Pattern: (BooleanP | Automatic) | Null

MeasureVolume

Default Value: Automatic

Pattern Description: True or False or Null.

Programmatic Pattern: (BooleanP | Automatic) | Null

ImageSample

Default Value: Automatic

Default Calculation: Automatically resolves to True if any Mix related options are set. Otherwise, resolves to False.

Pattern Description: True or False or Null.

Programmatic Pattern: ((Null | BooleanP) | Automatic) | Null

Index Matches to: Sample

MixType

Indicates the style of motion used to mix the sample, prior to starting the experiment.

The instrument that should be used to perform the filtration.

Default Value: Automatic

Default Calculation: Will automatically resolved to an instrument appropriate for the filtration type.

Index Matches to: Sample

Filter

The filter that should be used to remove impurities from the SamplesIn prior to starting the experiment.

Default Value: Automatic

Default Calculation: Will automatically resolve to a filter appropriate for the filtration type and instrument.

Pattern Description: An object of type or subtype Model[Container, Plate, Filter], Model[Container, Vessel, Filter], or Model[Item, Filter] or Null.

Programmatic Pattern: ((Null | ObjectP[{Model[Container, Plate, Filter], Model[Container, Vessel, Filter], Model[Item, Filter]}]) | Automatic) | Null

Index Matches to: Sample

FilterMaterial

The membrane material of the filter that should be used to remove impurities from the SamplesIn prior to starting the experiment.

Default Value: Automatic

Default Calculation: Resolves to an appropriate filter material for the given sample is Filtration is set to True.

Programmatic Pattern: ((Null | FilterMembraneMaterialP) | Automatic) | Null

Index Matches to: Sample

PrefilterMaterial

The material from which the prefilter filtration membrane should be made of to remove impurities from the SamplesIn prior to starting the experiment.

Default Value: Automatic

Default Calculation: By default, no prefiltration is performed on samples, even when Filter->True.

Programmatic Pattern: ((Null | FilterMembraneMaterialP) | Automatic) | Null

Index Matches to: Sample

FilterPoreSize

The pore size of the filter that should be used when removing impurities from the SamplesIn prior to starting the experiment.

Default Value: Automatic

Default Calculation: Resolves to an appropriate filter pore size for the given sample is Filtration is set to True.

Programmatic Pattern: ((Null | FilterSizeP) | Automatic) | Null

Index Matches to: Sample

The desired container filtered samples should be produced in or transferred into by the end of filtration, with indices indicating grouping of samples in the same plates, if desired.

Default Value: Automatic

Default Calculation: Automatically set as the PreferredContainer for the Volume of the sample. For plates, attempts to fill all wells of a single plate with the same model before using another one.

Pattern Description: An object of type or subtype Model[Container] or Object[Container] or a prepared sample or {Index, Container} or Null.

Index Matches to: Sample

FilterAliquotDestinationWell

The desired position in the corresponding AliquotContainer in which the aliquot samples will be placed.

Default Value: Automatic

Default Calculation: Automatically resolves to A1 in containers with only one position. For plates, fills wells in the order provided by the function AllWells.

Pattern Description: Any well from A1 to H12 or Null.

Programmatic Pattern: ((Null | WellPositionP) | Automatic) | Null

Index Matches to: Sample

Default Value: Automatic

Pattern Description: All or Count or Count or Mass or Volume or Null.

Index Matches to: Sample

TargetConcentration

Default Value: Automatic

Default Calculation: Automatically calculated based on aliquot and buffer volumes.

Pattern Description: Greater than 0 molar or greater than 0 grams per liter or Null.

Programmatic Pattern: ((Null | (GreaterP[0*Molar] | GreaterP[0*(Gram/Liter)])) | Automatic) | Null

Index Matches to: Sample

TargetConcentrationAnalyte

The substance whose final concentration is attained with the TargetConcentration option.

Default Value: Automatic

Programmatic Pattern: ((Null | ObjectP[IdentityModelTypes]) | Automatic) | Null

Index Matches to: Sample

AssayVolume

The desired total volume of the aliquoted sample plus dilution buffer.

Default Value: Automatic

Default Calculation: Automatically determined based on Volume and TargetConcentration option values.

Pattern Description: Greater than or equal to 1 microliter and less than or equal to 20 liters or Null.

Programmatic Pattern: ((Null | RangeP[1*Microliter, 20*Liter]) | Automatic) | Null

Index Matches to: Sample

The buffer that should be added to any aliquots requiring dilution, where the volume of this buffer added is the difference between the AliquotAmount and the total AssayVolume.

Default Value: Automatic

Default Calculation: Automatically resolves to Model[Sample, "Milli-Q water"] if ConcentratedBuffer is not specified; otherwise, resolves to Null.

Pattern Description: An object of type or subtype Model[Sample] or Object[Sample] or a prepared sample or Null.

Programmatic Pattern: ((Null | (ObjectP[{Model[Sample], Object[Sample]}] | _String)) | Automatic) | Null

Index Matches to: Sample

AliquotSampleStorageCondition

The non-default conditions under which any aliquot samples generated by this experiment should be stored after the protocol is completed.

Default Value: Automatic

Programmatic Pattern: ((Null | (SampleStorageTypeP | Disposal)) | Automatic) | Null

Index Matches to: Sample

DestinationWell

The desired position in the corresponding AliquotContainer in which the aliquot samples will be placed.

Default Value: Automatic

Default Calculation: Automatically resolves to A1 in containers with only one position. For plates, fills wells in the order provided by the function AllWells.

Pattern Description: Any well from A1 to H12 or list of one or more any well from A1 to H12 or any well from A1 to H12 entries or Null.

Programmatic Pattern: ((WellPositionP | {((Automatic | Null) | WellPositionP)..}) | Automatic) | Null

AliquotContainer

Default Value: Automatic

AliquotPreparation

Indicates the desired scale at which liquid handling used to generate aliquots will occur.

Default Value: Automatic

Default Calculation: Automatic resolution will occur based on manipulation volumes and container types.

Pattern Description: Manual or Robotic or Null.

Programmatic Pattern: (PreparationMethodP | Automatic) | Null

Options

The options that specify the parameters of this unit operation.

Pattern: {_Rule..}

General

Sample

The samples that will be measured by the plate reader instrument.

Default Value: Null

Pattern Description: Container with Well Position or Sample or Container or Null.

Index Matches to: Sample

RunTime

The length of time over which fluorescence measurements should be made.

Default Value: 45 minutes

Pattern Description: Greater than or equal to 1 minute and less than or equal to 24 hours.

Programmatic Pattern: RangeP[1*Minute, 24*Hour]

ReadOrder

Indicates if all measurements and injections should be done for one well before advancing to the next (serial) or in cycles in which each well is read once per cycle (parallel).

Default Value: Parallel

Pattern Description: Serial or Parallel.

Programmatic Pattern: ReadOrderP

PlateReaderMixSchedule

Indicates the points at which mixing should occur in the plate reader.

Default Value: Automatic

Pattern Description: BeforeReadings, BetweenReadings, or AfterInjections or Null.

Programmatic Pattern: (MixingScheduleP | Automatic) | Null

Mode

The type of fluorescence reading which should be performed.

Default Value: Automatic

Pattern Description: Fluorescence or TimeResolvedFluorescence.

Programmatic Pattern: (Fluorescence | TimeResolvedFluorescence) | Automatic

WavelengthSelection

Indicates if the emission and excitation wavelengths should be obtained by filters or monochromators.

Default Value: Automatic

Pattern Description: Filters or Monochromators.

Programmatic Pattern: WavelengthSelectionP | Automatic

Gain

The gain which should be applied to the signal reaching the primary detector. This may be specified either as a direct voltage, or as a percentage (which indicates that the gain should be set such that the AdjustmentSample fluoresces at that percentage of the instrument's dynamic range).

Default Value: Automatic

Default Calculation: If unspecified defaults to 90% if an adjustment sample is provided or if the instrument can scan the entire plate to determine gain. Otherwise defaults to 2500 Microvolt

Pattern Description: Greater than or equal to 1 microvolt and less than or equal to 4095 microvolts or greater than or equal to 1 percent and less than or equal to 95 percent.

Programmatic Pattern: (RangeP[1*Percent, 95*Percent] | RangeP[1*Microvolt, 4095*Microvolt]) | Automatic

Index Matches to: ExcitationWavelength

DualEmissionGain

The gain to apply to the signal reaching the secondary detector. This may be specified either as a direct voltage, or as a percentage relative to the AdjustmentSample option.

Default Value: Automatic

Pattern Description: Greater than or equal to 1 microvolt and less than or equal to 4095 microvolts or greater than or equal to 1 percent and less than or equal to 95 percent or Null.

Programmatic Pattern: ((RangeP[1*Percent, 95*Percent] | RangeP[1*Microvolt, 4095*Microvolt]) | Automatic) | Null

Index Matches to: ExcitationWavelength

AdjustmentSample

Default Value: Automatic

Pattern Description: An object of type or subtype Object[Sample] or a prepared sample or FullPlate or {Index, Sample} or Null.

Programmatic Pattern: ((FullPlate | (ObjectP[Object[Sample]] | _String) | {RangeP[1, 384, 1], ObjectP[Object[Sample]] | _String}) | Automatic) | Null

Index Matches to: ExcitationWavelength

EquilibrationTime

The length of time for which the assay plates should equilibrate at the assay temperature in the plate reader before being read.

Default Value: Automatic

Default Calculation: Defaults to 0 Second if Temperature is set to Ambient. Otherwise defaults to 5 Minute.

Pattern Description: Greater than or equal to 0 minutes and less than or equal to 1 hour.

Programmatic Pattern: RangeP[0*Minute, 1*Hour] | Automatic

NumberOfReadings

Number of redundant readings which should be taken by the detector to determine a single averaged fluorescence intensity reading.

Default Value: 100

Pattern Description: Greater than or equal to 1 and less than or equal to 200.

Programmatic Pattern: RangeP[1, 200]

WorkCell

Indicates the work cell that this primitive will be run on if Preparation->Robotic.

Default Value: Automatic

Default Calculation: Automatically set to STAR if Preparation->Robotic.

Pattern Description: STAR, bioSTAR, or microbioSTAR or Null.

Programmatic Pattern: ((STAR | bioSTAR | microbioSTAR) | Automatic) | Null

MoatSize

Indicates the number of concentric perimeters of wells which should be should be filled with MoatBuffer in order to decrease evaporation from the assay samples during the run.

Default Value: Automatic

Pattern Description: Greater than 0 in increments of 1 or Null.

Programmatic Pattern: (GreaterP[0, 1] | Automatic) | Null

MoatVolume

Indicates the volume which should be added to each moat well.

Default Value: Automatic

Default Calculation: Automatically set to the RecommendedFillVolume of the assay plate if informed, or 75% of the MaxVolume of the assay plate if not, if any other moat options are specified.

Pattern Description: Greater than 0 microliters or Null.

Programmatic Pattern: (GreaterP[0*Microliter] | Automatic) | Null

MoatBuffer

Indicates the buffer which should be used to fill each moat well.

Default Value: Automatic

Pattern Description: An object of type or subtype Object[Sample] or Model[Sample] or a prepared sample or Null.

Programmatic Pattern: ((ObjectP[{Object[Sample], Model[Sample]}] | _String) | Automatic) | Null

PrimaryInjectionFlowRate

The speed at which to transfer injection samples into the assay plate in the first round of injections.

Default Value: Automatic

Default Calculation: Defaults to 300 Microliter/Second if primary injections are specified.

Programmatic Pattern: (BMGFlowRateP | Automatic) | Null

Indicates the order in which wells should be read by specifying the plate path the instrument should follow when measuring fluorescence.

Default Value: Row

Pattern Description: Row, Column, SerpentineRow, or SerpentineColumn.

Programmatic Pattern: ReadDirectionP

InjectionSampleStorageCondition

The non-default conditions under which any injection samples used by this experiment should be stored after the protocol is completed.

Default Value: Null

Programmatic Pattern: (SampleStorageTypeP | Disposal) | Null

TargetCarbonDioxideLevel

The target amount of carbon dioxide in the atmosphere in the plate reader chamber.

Default Value: Automatic

Default Calculation: Automatically set to 5% for mammalian cells, and Null otherwise.

Pattern Description: Greater than or equal to 0.1 percent and less than or equal to 20 percent or Null.

Programmatic Pattern: (RangeP[0.1*Percent, 20*Percent] | Automatic) | Null

TargetOxygenLevel

Default Value: Null

Pattern Description: Greater than or equal to 0.1 percent and less than or equal to 20 percent or Null.

Programmatic Pattern: RangeP[0.1*Percent, 20*Percent] | Null

AtmosphereEquilibrationTime

The length of time for which the samples equilibrate at the requested oxygen and carbon dioxide level before being read.

Default Value: Automatic

Default Calculation: Automatically set to 5 Minute if TargetCarbonDioxideLevel or TargetOxygenLevel is specified. Otherwise, set to Null.

Pattern Description: Greater than or equal to 0 seconds and less than or equal to 24 hours or Null.

Programmatic Pattern: (RangeP[0*Second, 24*Hour] | Automatic) | Null

TertiaryInjectionFlowRate

The speed at which to transfer injection samples into the assay plate in the third round of injections.

Default Value: Automatic

Default Calculation: Defaults to 300 Microliter/Second if tertiary injections are specified.

Programmatic Pattern: (BMGFlowRateP | Automatic) | Null

QuaternaryInjectionFlowRate

The speed at which to transfer injection samples into the assay plate in the fourth round of injections.

Default Value: Automatic

Default Calculation: Defaults to 300 Microliter/Second if quaternary injections are specified.

Programmatic Pattern: (BMGFlowRateP | Automatic) | Null

Post Experiment

SamplesInStorageCondition

Default Value: Null

Programmatic Pattern: (Null | (Alternatives[SampleStorageTypeP | Disposal])) | Null

Index Matches to: Sample

MeasureWeight

Default Value: Automatic

Pattern Description: True or False or Null.

Programmatic Pattern: (BooleanP | Automatic) | Null

MeasureVolume

Default Value: Automatic

Pattern Description: True or False or Null.

Programmatic Pattern: (BooleanP | Automatic) | Null

ImageSample

Default Value: Automatic

Default Calculation: Automatically resolves to True if any Mix related options are set. Otherwise, resolves to False.

Pattern Description: True or False or Null.

Programmatic Pattern: ((Null | BooleanP) | Automatic) | Null

Index Matches to: Sample

MixType

Indicates the style of motion used to mix the sample, prior to starting the experiment.

The instrument that should be used to perform the filtration.

Default Value: Automatic

Default Calculation: Will automatically resolved to an instrument appropriate for the filtration type.

Index Matches to: Sample

Filter

The filter that should be used to remove impurities from the SamplesIn prior to starting the experiment.

Default Value: Automatic

Default Calculation: Will automatically resolve to a filter appropriate for the filtration type and instrument.

Pattern Description: An object of type or subtype Model[Container, Plate, Filter], Model[Container, Vessel, Filter], or Model[Item, Filter] or Null.

Programmatic Pattern: ((Null | ObjectP[{Model[Container, Plate, Filter], Model[Container, Vessel, Filter], Model[Item, Filter]}]) | Automatic) | Null

Index Matches to: Sample

FilterMaterial

The membrane material of the filter that should be used to remove impurities from the SamplesIn prior to starting the experiment.

Default Value: Automatic

Default Calculation: Resolves to an appropriate filter material for the given sample is Filtration is set to True.

Programmatic Pattern: ((Null | FilterMembraneMaterialP) | Automatic) | Null

Index Matches to: Sample

PrefilterMaterial

The material from which the prefilter filtration membrane should be made of to remove impurities from the SamplesIn prior to starting the experiment.

Default Value: Automatic

Default Calculation: By default, no prefiltration is performed on samples, even when Filter->True.

Programmatic Pattern: ((Null | FilterMembraneMaterialP) | Automatic) | Null

Index Matches to: Sample

FilterPoreSize

The pore size of the filter that should be used when removing impurities from the SamplesIn prior to starting the experiment.

Default Value: Automatic

Default Calculation: Resolves to an appropriate filter pore size for the given sample is Filtration is set to True.

Programmatic Pattern: ((Null | FilterSizeP) | Automatic) | Null

Index Matches to: Sample

The desired container filtered samples should be produced in or transferred into by the end of filtration, with indices indicating grouping of samples in the same plates, if desired.

Default Value: Automatic

Default Calculation: Automatically set as the PreferredContainer for the Volume of the sample. For plates, attempts to fill all wells of a single plate with the same model before using another one.

Pattern Description: An object of type or subtype Model[Container] or Object[Container] or a prepared sample or {Index, Container} or Null.

Index Matches to: Sample

FilterAliquotDestinationWell

The desired position in the corresponding AliquotContainer in which the aliquot samples will be placed.

Default Value: Automatic

Default Calculation: Automatically resolves to A1 in containers with only one position. For plates, fills wells in the order provided by the function AllWells.

Pattern Description: Any well from A1 to H12 or Null.

Programmatic Pattern: ((Null | WellPositionP) | Automatic) | Null

Index Matches to: Sample

Default Value: Automatic

Pattern Description: All or Count or Count or Mass or Volume or Null.

Index Matches to: Sample

TargetConcentration

Default Value: Automatic

Default Calculation: Automatically calculated based on aliquot and buffer volumes.

Pattern Description: Greater than 0 molar or greater than 0 grams per liter or Null.

Programmatic Pattern: ((Null | (GreaterP[0*Molar] | GreaterP[0*(Gram/Liter)])) | Automatic) | Null

Index Matches to: Sample

TargetConcentrationAnalyte

The substance whose final concentration is attained with the TargetConcentration option.

Default Value: Automatic

Programmatic Pattern: ((Null | ObjectP[IdentityModelTypes]) | Automatic) | Null

Index Matches to: Sample

AssayVolume

The desired total volume of the aliquoted sample plus dilution buffer.

Default Value: Automatic

Default Calculation: Automatically determined based on Volume and TargetConcentration option values.

Pattern Description: Greater than or equal to 1 microliter and less than or equal to 20 liters or Null.

Programmatic Pattern: ((Null | RangeP[1*Microliter, 20*Liter]) | Automatic) | Null

Index Matches to: Sample

The buffer that should be added to any aliquots requiring dilution, where the volume of this buffer added is the difference between the AliquotAmount and the total AssayVolume.

Default Value: Automatic

Default Calculation: Automatically resolves to Model[Sample, "Milli-Q water"] if ConcentratedBuffer is not specified; otherwise, resolves to Null.

Pattern Description: An object of type or subtype Model[Sample] or Object[Sample] or a prepared sample or Null.

Programmatic Pattern: ((Null | (ObjectP[{Model[Sample], Object[Sample]}] | _String)) | Automatic) | Null

Index Matches to: Sample

AliquotSampleStorageCondition

The non-default conditions under which any aliquot samples generated by this experiment should be stored after the protocol is completed.

Default Value: Automatic

Programmatic Pattern: ((Null | (SampleStorageTypeP | Disposal)) | Automatic) | Null

Index Matches to: Sample

DestinationWell

The desired position in the corresponding AliquotContainer in which the aliquot samples will be placed.

Default Value: Automatic

Default Calculation: Automatically resolves to A1 in containers with only one position. For plates, fills wells in the order provided by the function AllWells.

Pattern Description: Any well from A1 to H12 or list of one or more any well from A1 to H12 or any well from A1 to H12 entries or Null.

Programmatic Pattern: ((WellPositionP | {((Automatic | Null) | WellPositionP)..}) | Automatic) | Null

AliquotContainer

Default Value: Automatic

AliquotPreparation

Indicates the desired scale at which liquid handling used to generate aliquots will occur.

Default Value: Automatic

Default Calculation: Automatic resolution will occur based on manipulation volumes and container types.

Pattern Description: Manual or Robotic or Null.

Programmatic Pattern: (PreparationMethodP | Automatic) | Null

Options

The options that specify the parameters of this unit operation.

Pattern: {_Rule..}

General

Sample

The samples that will be measured by the plate reader instrument.

Default Value: Null

Pattern Description: Container with Well Position or Sample or Container or Null.

Index Matches to: Sample

SampleLabel

A user defined word or phrase used to identify the samples for which alpha screen measurements are taken, for use in downstream unit operations.

Default Value: Automatic

Pattern Description: A string.

Programmatic Pattern: _String | Automatic

Index Matches to: Sample

SampleContainerLabel

A user defined word or phrase used to identify the containers holding the samples for which alpha screen measurements are taken, for use in downstream unit operations.

Default Value: Automatic

Pattern Description: A string.

Programmatic Pattern: _String | Automatic

Index Matches to: Sample

PreparedPlate

Indicates if a prepared plate is provided for AlphaScreen measurement. The prepared plate contains the analytes, acceptor and donor AlphaScreen beads that are ready to be excited by AlphaScreen laser for luminescent AlphaScreen measurement in a plate reader. If the 'PreparedPlate' is False, the samples that contain all the components will be transferred to an assay plate for AlphaScreen measurement.

Default Value: False

Pattern Description: True or False.

Programmatic Pattern: BooleanP

Default Value: Automatic

Pattern Description: Manual or Robotic.

Programmatic Pattern: PreparationMethodP | Automatic

Post Experiment

SamplesInStorageCondition

Default Value: Null

Programmatic Pattern: (Null | (Alternatives[SampleStorageTypeP | Disposal])) | Null

Index Matches to: Sample

StoreMeasuredPlates

Indicate if the assay plates are stored after the experiment is completed. If it sets to True, the plates are stored according to the storage condition of the samples after measurement. If it sets to False, the plates are discarded after measurement.

Default Value: False

Pattern Description: True or False.

Programmatic Pattern: BooleanP

MeasureWeight

Default Value: Automatic

Pattern Description: True or False or Null.

Programmatic Pattern: (BooleanP | Automatic) | Null

MeasureVolume

Default Value: Automatic

Pattern Description: True or False or Null.

Programmatic Pattern: (BooleanP | Automatic) | Null

ImageSample

Default Value: Automatic

Default Calculation: Automatically resolves to True if any Mix related options are set. Otherwise, resolves to False.

Pattern Description: True or False or Null.

Programmatic Pattern: ((Null | BooleanP) | Automatic) | Null

Index Matches to: Sample

MixType

Indicates the style of motion used to mix the sample, prior to starting the experiment.

The instrument that should be used to perform the filtration.

Default Value: Automatic

Default Calculation: Will automatically resolved to an instrument appropriate for the filtration type.

Index Matches to: Sample

Filter

The filter that should be used to remove impurities from the SamplesIn prior to starting the experiment.

Default Value: Automatic

Default Calculation: Will automatically resolve to a filter appropriate for the filtration type and instrument.

Pattern Description: An object of type or subtype Model[Container, Plate, Filter], Model[Container, Vessel, Filter], or Model[Item, Filter] or Null.

Programmatic Pattern: ((Null | ObjectP[{Model[Container, Plate, Filter], Model[Container, Vessel, Filter], Model[Item, Filter]}]) | Automatic) | Null

Index Matches to: Sample

FilterMaterial

The membrane material of the filter that should be used to remove impurities from the SamplesIn prior to starting the experiment.

Default Value: Automatic

Default Calculation: Resolves to an appropriate filter material for the given sample is Filtration is set to True.

Programmatic Pattern: ((Null | FilterMembraneMaterialP) | Automatic) | Null

Index Matches to: Sample

PrefilterMaterial

The material from which the prefilter filtration membrane should be made of to remove impurities from the SamplesIn prior to starting the experiment.

Default Value: Automatic

Default Calculation: By default, no prefiltration is performed on samples, even when Filter->True.

Programmatic Pattern: ((Null | FilterMembraneMaterialP) | Automatic) | Null

Index Matches to: Sample

FilterPoreSize

The pore size of the filter that should be used when removing impurities from the SamplesIn prior to starting the experiment.

Default Value: Automatic

Default Calculation: Resolves to an appropriate filter pore size for the given sample is Filtration is set to True.

Programmatic Pattern: ((Null | FilterSizeP) | Automatic) | Null

Index Matches to: Sample

The desired container filtered samples should be produced in or transferred into by the end of filtration, with indices indicating grouping of samples in the same plates, if desired.

Default Value: Automatic

Default Calculation: Automatically set as the PreferredContainer for the Volume of the sample. For plates, attempts to fill all wells of a single plate with the same model before using another one.

Pattern Description: An object of type or subtype Model[Container] or Object[Container] or a prepared sample or {Index, Container} or Null.

Index Matches to: Sample

FilterAliquotDestinationWell

The desired position in the corresponding AliquotContainer in which the aliquot samples will be placed.

Default Value: Automatic

Default Calculation: Automatically resolves to A1 in containers with only one position. For plates, fills wells in the order provided by the function AllWells.

Pattern Description: Any well from A1 to H12 or Null.

Programmatic Pattern: ((Null | WellPositionP) | Automatic) | Null

Index Matches to: Sample

Default Value: Automatic

Pattern Description: All or Count or Count or Mass or Volume or Null.

Index Matches to: Sample

TargetConcentration

Default Value: Automatic

Default Calculation: Automatically calculated based on aliquot and buffer volumes.

Pattern Description: Greater than 0 molar or greater than 0 grams per liter or Null.

Programmatic Pattern: ((Null | (GreaterP[0*Molar] | GreaterP[0*(Gram/Liter)])) | Automatic) | Null

Index Matches to: Sample

TargetConcentrationAnalyte

The substance whose final concentration is attained with the TargetConcentration option.

Default Value: Automatic

Programmatic Pattern: ((Null | ObjectP[IdentityModelTypes]) | Automatic) | Null

Index Matches to: Sample

AssayVolume

The desired total volume of the aliquoted sample plus dilution buffer.

Default Value: Automatic

Default Calculation: Automatically determined based on Volume and TargetConcentration option values.

Pattern Description: Greater than or equal to 1 microliter and less than or equal to 20 liters or Null.

Programmatic Pattern: ((Null | RangeP[1*Microliter, 20*Liter]) | Automatic) | Null

Index Matches to: Sample

The buffer that should be added to any aliquots requiring dilution, where the volume of this buffer added is the difference between the AliquotAmount and the total AssayVolume.

Default Value: Automatic

Default Calculation: Automatically resolves to Model[Sample, "Milli-Q water"] if ConcentratedBuffer is not specified; otherwise, resolves to Null.

Pattern Description: An object of type or subtype Model[Sample] or Object[Sample] or a prepared sample or Null.

Programmatic Pattern: ((Null | (ObjectP[{Model[Sample], Object[Sample]}] | _String)) | Automatic) | Null

Index Matches to: Sample

AliquotSampleStorageCondition

The non-default conditions under which any aliquot samples generated by this experiment should be stored after the protocol is completed.

Default Value: Automatic

Programmatic Pattern: ((Null | (SampleStorageTypeP | Disposal)) | Automatic) | Null

Index Matches to: Sample

DestinationWell

The desired position in the corresponding AliquotContainer in which the aliquot samples will be placed.

Default Value: Automatic

Default Calculation: Automatically resolves to A1 in containers with only one position. For plates, fills wells in the order provided by the function AllWells.

Pattern Description: Any well from A1 to H12 or list of one or more any well from A1 to H12 or any well from A1 to H12 entries or Null.

Programmatic Pattern: ((WellPositionP | {((Automatic | Null) | WellPositionP)..}) | Automatic) | Null

AliquotContainer

Default Value: Automatic

AliquotPreparation

Indicates the desired scale at which liquid handling used to generate aliquots will occur.

Default Value: Automatic

Default Calculation: Automatic resolution will occur based on manipulation volumes and container types.

Pattern Description: Manual or Robotic or Null.

Programmatic Pattern: (PreparationMethodP | Automatic) | Null

ConsolidateAliquots

Indicates if identical aliquots should be prepared in the same container/position.

Default Value: Automatic

Pattern Description: False or Null.

Programmatic Pattern: (False | Automatic) | Null

AlphaScreen Sample Preparation

AlphaAssayVolume

The total volume that each sample is transferred to the assay plate for luminescent AlphaScreen measurement.

Default Value: Automatic

Default Calculation: Automatic resolves to the recommended fill volume of the 'AssayPlateModel'. If the 'AssayPlateModel' is also set to Automatic, automatic resolves to 100 Microliter.

Pattern Description: Greater than or equal to 0 microliters and less than or equal to 300 microliters or Null.

Programmatic Pattern: (RangeP[0*Microliter, 300*Microliter] | Automatic) | Null

NumberOfReplicates

The number of wells each sample is aliquoted into and read independently.

Default Value: Null

Pattern Description: Greater than or equal to 0 and less than or equal to 384 in increments of 1 or Null.

Programmatic Pattern: RangeP[0, 384, 1] | Null

Optics

ReadTemperature

The temperature at which the measurement will be taken in the plate reader.

Default Value: 37 degrees Celsius

Pattern Description: Ambient or greater than or equal to 25 degrees Celsius and less than or equal to 45 degrees Celsius.

Programmatic Pattern: RangeP[$AmbientTemperature, 45*Celsius] | Ambient

ReadEquilibrationTime

The length of time for which the assay plates should equilibrate at the assay temperature in the plate reader before being read.

Default Value: 2 minutes

Pattern Description: Greater than or equal to 0 minutes and less than or equal to 2 hours.

Programmatic Pattern: RangeP[0*Minute, 2*Hour]

TargetCarbonDioxideLevel

The target amount of carbon dioxide in the atmosphere in the plate reader chamber.

Default Value: Automatic

Default Calculation: Automatically set to 5% for mammalian cells, and Null otherwise.

Pattern Description: Greater than or equal to 0.1 percent and less than or equal to 20 percent or Null.

The distance from the focal point to the lens that collect the light to the primary detector photomultiplier tube (PMT).

Default Value: Automatic

Default Calculation: Automatic set to Auto, which indicates that the focal height will be selected by the instrument.

Pattern Description: Auto or greater than or equal to 0 millimeters and less than or equal to 25 millimeters.

Programmatic Pattern: (RangeP[0*Millimeter, 25*Millimeter] | Auto) | Automatic

SettlingTime

The time between the movement of the plate and the beginning of the measurement. It reduces potential vibration of the samples in plate due to the stop and go motion of the plate carrier.

Default Value: 0 milliseconds

Pattern Description: Greater than or equal to 0 seconds and less than or equal to 1 second.

Programmatic Pattern: RangeP[0*Second, 1*Second]

ExcitationTime

The time that the samples will be excited by the light source and the singlet Oxygen is generated.

Default Value: 80 milliseconds

Pattern Description: Greater than or equal to 0.01 seconds and less than or equal to 1 second.

Programmatic Pattern: RangeP[0.01*Second, 1*Second]

DelayTime

The time between end of excitation and start of the emission signal integration. It allows the singlet Oxygen to react with the acceptor beads and reduces potential auto-fluorescent noise generated by biomolecular components.

Default Value: 120 milliseconds

Pattern Description: Greater than or equal to 0 seconds and less than or equal to 2 seconds.

Programmatic Pattern: RangeP[0*Second, 2*Second]

IntegrationTime

The amount of time for which the emission signal is integrated.

Default Value: 300 milliseconds

Pattern Description: Greater than or equal to 0.01 seconds and less than or equal to 2 seconds.

Programmatic Pattern: RangeP[0.01*Second, 2*Second]

ExcitationWavelength

The excitation wavelength determined by the AlphaScreen laser.

Default Value: 680 nanometers

Pattern Description: Greater than or equal to 300 nanometers and less than or equal to 700 nanometers in increments of 1 nanometer.

Programmatic Pattern: RangeP[300*Nanometer, 700*Nanometer, 1*Nanometer]

EmissionWavelength

The emission wavelength determined by the optical filter.

Default Value: 570 nanometers

Pattern Description: 570 nanometers, 615 nanometers, 665 nanometers, or 620 nanometers.

Programmatic Pattern: 570*Nanometer | 615*Nanometer | 665*Nanometer | 620*Nanometer

RetainCover

Default Value: Automatic

Default Calculation: Automatically set to Model[Sample,"Milli-Q water"] if any other moat options are specified.]

Pattern Description: An object of type or subtype Object[Sample] or Model[Sample] or a prepared sample or Null.

Programmatic Pattern: ((ObjectP[{Object[Sample], Model[Sample]}] | _String) | Automatic) | Null

Pellet

pelletRules

Programmatic Pattern: PreparationMethodP | Automatic

The amount of time that the samples will be centrifuged.

Default Value: 5 minutes

Pattern Description: Greater than or equal to 0 minutes and less than or equal to 72 hours.

Programmatic Pattern: RangeP[0*Minute, $MaxExperimentTime]

Index Matches to: Sample

ResuspensionMixRateProfile

The frequency of rotation of the mixing instrument used to mix the samples, over the course of time.

Default Value: Automatic

Pattern Description: List of one or more {Time, MixRate} entries or Null.

Programmatic Pattern: ((Null | {{RangeP[0*Minute, $MaxExperimentTime], RangeP[$MinMixRate, $MaxMixRate] | RangeP[0*GravitationalAcceleration, 100*GravitationalAcceleration]}..}) | Automatic) | Null

Index Matches to: Sample

ResuspensionNumberOfMixes

The number of times the samples are mixed if MixType of Pipette or Invert is chosen.

Default Value: Automatic

Default Calculation: If MaxNumberOfMixes is specified, automatically set to 1/3 of MaxNumberOfMixes (round to integer); else if MixUntilDissolved->True, automatically set to 25; otherwise set to 15.

Pattern Description: Greater than or equal to 1 and less than or equal to 50 in increments of 1 or Null.

Programmatic Pattern: ((Null | RangeP[1, 50, 1]) | Automatic) | Null

Index Matches to: Sample

ResuspensionMaxNumberOfMixes

Default Value: Automatic

Default Calculation: When MixUntilDissolved->True, automatically set to 2*NumberOfMixes if it is Numeric (specified or automatically set); if not, set to 50.

Pattern Description: Greater than or equal to 1 and less than or equal to 250 in increments of 1 or Null.

Programmatic Pattern: ((Null | RangeP[1, 250, 1]) | Automatic) | Null

Index Matches to: Sample

ResuspensionMixVolume

The volume of the sample that is pipetted up and down to mix if MixType->Pipette.

Default Value: Automatic

Pattern Description: Greater than or equal to 0.5 microliters and less than or equal to 50 milliliters or Null.

Programmatic Pattern: ((Null | RangeP[0.5*Microliter, 50*Milliliter]) | Automatic) | Null

Index Matches to: Sample

ResuspensionMixTemperature

Default Value: Automatic

Default Calculation: Automatically set to 40 Celsius if AnnealingTime is specified, if not, set to Ambient.

Pattern Description: Ambient or greater than or equal to -20 degrees Celsius and less than or equal to 500 degrees Celsius or Null.

Programmatic Pattern: ((Null | (RangeP[$MinIncubationTemperature, $MaxIncubationTemperature] | Ambient)) | Automatic) | Null

Index Matches to: Sample

ResuspensionMixTemperatureProfile

The temperature of the device, over the course of time, that is used to mix/incubate the sample.

Default Value: Automatic

Pattern Description: List of one or more {Time, Temperature} entries or Null.

Programmatic Pattern: ((Null | {{RangeP[0*Minute, $MaxExperimentTime], RangeP[$MinTemperatureProfileTemperature, $MaxTemperatureProfileTemperature]}..}) | Automatic) | Null

Index Matches to: Sample

ResuspensionMixMaxTemperature

Default Value: Automatic

Pattern Description: Greater than or equal to 0 degrees Celsius and less than or equal to 100 degrees Celsius or Null.

Programmatic Pattern: ((Null | RangeP[0*Celsius, 100*Celsius]) | Automatic) | Null

Index Matches to: Sample

ResuspensionMixOscillationAngle

The angle of oscillation of the mixing motion when a wrist action shaker is used.

Default Value: Automatic

Pattern Description: Greater than or equal to 0 degrees and less than or equal to 15 degrees or Null.

Programmatic Pattern: ((Null | RangeP[0*AngularDegree, 15*AngularDegree]) | Automatic) | Null

Default Value: Automatic

Default Calculation: Automatically set to 2 Millimeter if MixType->Pipette and Preparation->Robotic.

Pattern Description: {X,Y,Z} Coordinate Offset or Z Offset or Null.

Programmatic Pattern: ((Null | (GreaterEqualP[0*Millimeter] | Coordinate[{DistanceP, DistanceP, GreaterEqualP[0*Millimeter]}])) | Automatic) | Null

Index Matches to: Sample

ResuspensionMixCorrectionCurve

The relationship between a target volume and the corrected volume that needs to be aspirated or dispensed to reach the target volume. This option can only be set if Preparation->Robotic.

Default Value: Automatic

Default Calculation: Automatically set to correction curve set in the PipettingMethod for the Object[Sample] if MixType->Pipette and Preparation->Robotic.

Pattern Description: List of one or more {Target Volume, Actual Volume} entries or Null.

Programmatic Pattern: ((Null | {{RangeP[0*Microliter, 1000*Microliter], RangeP[0*Microliter, 1250*Microliter]}..}) | Automatic) | Null

Index Matches to: Sample

ResuspensionMixTips

The pipette tips used to aspirate and dispense the requested volume..

Default Value: Automatic

Pattern Description: An object of type or subtype Model[Item, Tips] or Object[Item, Tips] or Null.

Programmatic Pattern: ((Null | ObjectP[{Model[Item, Tips], Object[Item, Tips]}]) | Automatic) | Null

Index Matches to: Sample

ResuspensionMixTipType

The tip type to use to mix liquid in the manipulation.

Default Value: Automatic

Default Calculation: If Tips is specified, automatically set to the field TipType of the Model[Item, Tips] or the Model of Object[Item,Tips]. Otherwise, set to Null.

Pattern Description: Normal, Barrier, WideBore, GelLoading, or Aspirator or Null.

Programmatic Pattern: ((Null | TipTypeP) | Automatic) | Null

Index Matches to: Sample

Indicates if this sample should be mixed while incubated, prior to starting the experiment.

Default Value: Automatic

Default Calculation: Automatically resolves to True if any Mix related options are set. Otherwise, resolves to False.

Pattern Description: True or False or Null.

Programmatic Pattern: ((Null | BooleanP) | Automatic) | Null

Index Matches to: Sample

MixType

Indicates the style of motion used to mix the sample, prior to starting the experiment.

The instrument that should be used to perform the filtration.

Default Value: Automatic

Default Calculation: Will automatically resolved to an instrument appropriate for the filtration type.

Index Matches to: Sample

Filter

The filter that should be used to remove impurities from the SamplesIn prior to starting the experiment.

Default Value: Automatic

Default Calculation: Will automatically resolve to a filter appropriate for the filtration type and instrument.

Pattern Description: An object of type or subtype Model[Container, Plate, Filter], Model[Container, Vessel, Filter], or Model[Item, Filter] or Null.

Programmatic Pattern: ((Null | ObjectP[{Model[Container, Plate, Filter], Model[Container, Vessel, Filter], Model[Item, Filter]}]) | Automatic) | Null

Index Matches to: Sample

FilterMaterial

The membrane material of the filter that should be used to remove impurities from the SamplesIn prior to starting the experiment.

Default Value: Automatic

Default Calculation: Resolves to an appropriate filter material for the given sample is Filtration is set to True.

Programmatic Pattern: ((Null | FilterMembraneMaterialP) | Automatic) | Null

Index Matches to: Sample

PrefilterMaterial

The material from which the prefilter filtration membrane should be made of to remove impurities from the SamplesIn prior to starting the experiment.

Default Value: Automatic

Default Calculation: By default, no prefiltration is performed on samples, even when Filter->True.

Programmatic Pattern: ((Null | FilterMembraneMaterialP) | Automatic) | Null

Index Matches to: Sample

FilterPoreSize

The pore size of the filter that should be used when removing impurities from the SamplesIn prior to starting the experiment.

Default Value: Automatic

Default Calculation: Resolves to an appropriate filter pore size for the given sample is Filtration is set to True.

Programmatic Pattern: ((Null | FilterSizeP) | Automatic) | Null

Index Matches to: Sample

The desired container filtered samples should be produced in or transferred into by the end of filtration, with indices indicating grouping of samples in the same plates, if desired.

Default Value: Automatic

Default Calculation: Automatically set as the PreferredContainer for the Volume of the sample. For plates, attempts to fill all wells of a single plate with the same model before using another one.

Pattern Description: An object of type or subtype Model[Container] or Object[Container] or a prepared sample or {Index, Container} or Null.

Index Matches to: Sample

FilterAliquotDestinationWell

The desired position in the corresponding AliquotContainer in which the aliquot samples will be placed.

Default Value: Automatic

Default Calculation: Automatically resolves to A1 in containers with only one position. For plates, fills wells in the order provided by the function AllWells.

Pattern Description: Any well from A1 to H12 or Null.

Programmatic Pattern: ((Null | WellPositionP) | Automatic) | Null

Index Matches to: Sample

Default Value: Automatic

Pattern Description: All or Count or Count or Mass or Volume or Null.

Index Matches to: Sample

TargetConcentration

Default Value: Automatic

Default Calculation: Automatically calculated based on aliquot and buffer volumes.

Pattern Description: Greater than 0 molar or greater than 0 grams per liter or Null.

Programmatic Pattern: ((Null | (GreaterP[0*Molar] | GreaterP[0*(Gram/Liter)])) | Automatic) | Null

Index Matches to: Sample

TargetConcentrationAnalyte

The substance whose final concentration is attained with the TargetConcentration option.

Default Value: Automatic

Programmatic Pattern: ((Null | ObjectP[IdentityModelTypes]) | Automatic) | Null

Index Matches to: Sample

AssayVolume

The desired total volume of the aliquoted sample plus dilution buffer.

Default Value: Automatic

Default Calculation: Automatically determined based on Volume and TargetConcentration option values.

Pattern Description: Greater than or equal to 1 microliter and less than or equal to 20 liters or Null.

Programmatic Pattern: ((Null | RangeP[1*Microliter, 20*Liter]) | Automatic) | Null

Index Matches to: Sample

The buffer that should be added to any aliquots requiring dilution, where the volume of this buffer added is the difference between the AliquotAmount and the total AssayVolume.

Default Value: Automatic

Default Calculation: Automatically resolves to Model[Sample, "Milli-Q water"] if ConcentratedBuffer is not specified; otherwise, resolves to Null.

Pattern Description: An object of type or subtype Model[Sample] or Object[Sample] or a prepared sample or Null.

Programmatic Pattern: ((Null | (ObjectP[{Model[Sample], Object[Sample]}] | _String)) | Automatic) | Null

Index Matches to: Sample

AliquotSampleStorageCondition

The non-default conditions under which any aliquot samples generated by this experiment should be stored after the protocol is completed.

Default Value: Automatic

Programmatic Pattern: ((Null | (SampleStorageTypeP | Disposal)) | Automatic) | Null

Index Matches to: Sample

DestinationWell

The desired position in the corresponding AliquotContainer in which the aliquot samples will be placed.

Default Value: Automatic

Default Calculation: Automatically resolves to A1 in containers with only one position. For plates, fills wells in the order provided by the function AllWells.

Pattern Description: Any well from A1 to H12 or list of one or more any well from A1 to H12 or any well from A1 to H12 entries or Null.

Programmatic Pattern: ((WellPositionP | {((Automatic | Null) | WellPositionP)..}) | Automatic) | Null

AliquotContainer

Default Value: Automatic

AliquotPreparation

Indicates the desired scale at which liquid handling used to generate aliquots will occur.

Default Value: Automatic

Default Calculation: Automatic resolution will occur based on manipulation volumes and container types.

Pattern Description: Manual or Robotic or Null.

Programmatic Pattern: (PreparationMethodP | Automatic) | Null

ConsolidateAliquots

Indicates if identical aliquots should be prepared in the same container/position.

Default Value: Automatic

SterileTechnique

Default Value: Automatic

Default Calculation: Automatically set to True if the samples being transferred contain tissue culture or microbial components.

Pattern Description: True or False.

Programmatic Pattern: BooleanP | Automatic

Index Matches to: Sample

Cover

Sample

The sample who should be covered.

General

Sample

The samples or containers that should be covered.

Default Value: Null

Pattern Description: An object of type or subtype Object[Sample] or Object[Container] or a prepared sample or Null.

Programmatic Pattern: ObjectP[{Object[Sample], Object[Container]}] | _String

Index Matches to: Sample

SampleLabel

A user defined word or phrase used to identify the samples that are being covered, for use in downstream unit operations.

Default Value: Automatic

Pattern Description: A string or Null.

Programmatic Pattern: ((Null | _String) | Automatic) | Null

Index Matches to: Sample

A user defined word or phrase used to identify the covers that are being used in the experiment, for use in downstream unit operations.

Default Value: Automatic

Pattern Description: A string.

Programmatic Pattern: _String | Automatic

Index Matches to: Sample

Septum

The septum that is used in conjunction with the cover to secure the top of the given container.

Default Value: Automatic

Default Calculation: Automatically set a Model[Item, Septum] with the same CoverFootprint as the calculated Cover, if CoverType->Crimp and the calculated Cover requires a septum (SeptumRequired->True in Model[Item, Cap]).

Pattern Description: An object of type or subtype Model[Item, Septum] or Object[Item, Septum] or Null.

Programmatic Pattern: ((Null | ObjectP[{Model[Item, Septum], Object[Item, Septum]}]) | Automatic) | Null

Index Matches to: Sample

Used to raise the SBS-format microplate inside of a PlateSealer instrument so that the plate is able to reach the height requirement of PlateSealer.

Default Value: Automatic

Pattern Description: An object of type or subtype Model[Container, Rack] or Object[Container, Rack] or a prepared sample or Null.

Programmatic Pattern: ((Null | (ObjectP[{Model[Container, Rack], Object[Container, Rack]}] | _String)) | Automatic) | Null

Index Matches to: Sample

Default Value: Automatic

Default Calculation: Automatically set to True if the samples being transferred contain tissue culture or microbial components.

Pattern Description: True or False.

Programmatic Pattern: BooleanP | Automatic

Index Matches to: Sample

Preparation

Default Value: Automatic

Sample

The sample who should be uncovered.

General

Sample

The samples or containers that should be uncovered.

Default Value: Null

Pattern Description: An object of type or subtype Object[Sample] or Object[Container] or a prepared sample or Null.

Programmatic Pattern: ObjectP[{Object[Sample], Object[Container]}] | _String

Index Matches to: Sample

SampleLabel

A user defined word or phrase used to identify the sample which is uncovered, for use in downstream unit operations.

Default Value: Automatic

Pattern Description: A string or Null.

Programmatic Pattern: ((Null | _String) | Automatic) | Null

Index Matches to: Sample

Default Value: Automatic

Index Matches to: Sample

SterileTechnique

Default Value: Automatic

Default Calculation: Automatically set to True if the samples being transferred contain tissue culture or microbial components.

Pattern Description: True or False.

Options

The options that specify the parameters of this unit operation.

Pattern: {_Rule..}

General

Source

The samples that should be serially diluted.

Default Value: Null

Pattern Description: Container with Well Position or Sample or Container or Null.

Programmatic Pattern: (ObjectP[{Object[Sample], Object[Container]}] | _String) | {Alternatives @@ Flatten[AllWells[NumberOfWells -> 384]] | LocationPositionP, ObjectP[{Object[Container]}] | _String}

Index Matches to: Source

SourceLabel

The label of the source sample that is used in the sequential dilution.

Default Value: Automatic

Pattern Description: A string.

Programmatic Pattern: _String | Automatic

Index Matches to: Source

The components in SamplesIn's Composition whose final concentrations (TargetConcentrations) are attained through a series of repeated dilutions.

Default Value: Automatic

Default Calculation: Automatically set to the first value in the Analytes field of SamplesIn, or, if not populated, to the first analyte in the Composition field of the input sample, or if none exist, the first identity model of any kind in the Composition field.

Programmatic Pattern: ((Null | ObjectP[IdentityModelTypes]) | Automatic) | Null

Index Matches to: Source

FinalVolume

The volume into which the sample is diluted for each serial dilution.

Default Value: Automatic

Default Calculation: Automatically set to 100Microliter. In either Direct or FromConcentrate, can be calculated from the equations in Process Diagrams.

Pattern Description: List of one or more greater than or equal to 0 microliters and less than or equal to 20 liters entries.

Programmatic Pattern: {RangeP[0*Microliter, $MaxTransferVolume]..} | Automatic

Index Matches to: Source

The label of the diluent added to the diluted sample.

Default Value: Automatic

Pattern Description: A string or Null.

Programmatic Pattern: ((Null | _String) | Automatic) | Null

Index Matches to: Source

DiluentAmount

The amount of solution used to reduce the concentration of the SamplesIn and each subsequent dilution.

Default Value: Automatic

Default Calculation: Automatically set to 90Microliter. If SerialDilutionFactors or TargetConcentrations, and FinalVolume are provided, this option can be calculated from the equations in Process Diagrams.

Pattern Description: List of one or more greater than or equal to 0 microliters and less than or equal to 20 liters entries.

Programmatic Pattern: {RangeP[0*Microliter, $MaxTransferVolume]..} | Automatic

Index Matches to: Source

BufferDiluent

The solution used to reduce the concentration of the ConcentratedBuffer in the first and each subsequent dilution.

Default Value: Null

Default Calculation: If the BufferDilutionStrategy is Direct, it will be set to Null. If not, it will automatically be set to the Solvent of ConcentratedBuffer, or Model["milli-Q Water"] if Solvent is not defined.

Pattern Description: An object of type or subtype Object[Sample] or Model[Sample] or a prepared sample or Null.

Programmatic Pattern: (Null | (ObjectP[{Object[Sample], Model[Sample]}] | _String)) | Null

Index Matches to: Source

Default Value: Automatic

Pattern Description: List of one or more a string entries.

Programmatic Pattern: {_String..} | Automatic

Index Matches to: Source

ContainerOutLabel

The label of the container that holds the sample that becomes the SamplesOut.

Default Value: Automatic

Pattern Description: List of one or more a string entries.

Programmatic Pattern: {_String..} | Automatic

Index Matches to: Source

Preparation

Programmatic Pattern: ((Null | GreaterEqualP[0, 1]) | Automatic) | Null

Index Matches to: Source

Post Experiment

SamplesInStorageCondition

Default Value: Null

Programmatic Pattern: (Null | (Alternatives[SampleStorageTypeP | Disposal])) | Null

Index Matches to: Source

SamplesOutStorageCondition

Default Value: Null

Programmatic Pattern: (Null | (Alternatives[SampleStorageTypeP | Disposal])) | Null

Index Matches to: Source

MeasureWeight

Default Value: Automatic

Pattern Description: True or False or Null.

Programmatic Pattern: (BooleanP | Automatic) | Null

MeasureVolume

Default Value: Automatic

Pattern Description: True or False or Null.

Programmatic Pattern: (BooleanP | Automatic) | Null

ImageSample

Default Value: Automatic

Pattern Description: True or False or Null.

Programmatic Pattern: (BooleanP | Automatic) | Null

Resuspend

resuspendRules

The list of key/value pairs specifying the samples and volume of solvent to transfer into the sample.

General

Sample

The samples that should be resuspended.

Default Value: Null

Pattern Description: Sample or Container or Null.

Programmatic Pattern: Alternatives[ObjectP[{Object[Sample], Object[Container]}] | _String]

Index Matches to: Sample

Amount

The amount of a sample that should be resuspended in a diluent.

Default Value: Automatic

Default Calculation: Automatically set to the current mass of the sample, or the value necessary to reach the specified TargetConcentration.

Pattern Description: All or Count or Count or Mass or Null.

Index Matches to: Sample

TargetConcentration

The desired final concentration of analyte after resuspension of the input samples with the Diluent.

Default Value: Automatic

Default Calculation: Automatically calculated based on Amount and Volume options.

Pattern Description: Greater than 0 molar or greater than 0 grams per liter or Null.

Programmatic Pattern: ((Null | (GreaterP[0*Molar] | GreaterP[0*(Gram/Liter)])) | Automatic) | Null

Index Matches to: Sample

TargetConcentrationAnalyte

The substance whose final concentration is attained with the TargetConcentration option.

Default Value: Automatic

Programmatic Pattern: ((Null | ObjectP[IdentityModelTypes]) | Automatic) | Null

Index Matches to: Sample

Volume

The desired total volume of the resuspended sample plus diluent.

Default Value: Automatic

Default Calculation: Automatically determined based on the TargetConcentration option values. If not specified and TargetConcentration is also not specified, an error is thrown.

Pattern Description: Greater than or equal to 1 microliter and less than or equal to 20 liters or Null.

Programmatic Pattern: ((Null | RangeP[1*Microliter, 20*Liter]) | Automatic) | Null

Index Matches to: Sample

Default Value: Null

Pattern Description: An object of type or subtype Object[Sample] or Model[Sample] or a prepared sample or Null.

Programmatic Pattern: (Null | (ObjectP[{Object[Sample], Model[Sample]}] | _String)) | Null

Index Matches to: Sample

BufferDilutionFactor

Default Value: Automatic

Default Calculation: If ConcentratedBuffer is specified, automatically set to the ConcentratedBufferDilutionFactor of that sample; otherwise, set to Null.

Pattern Description: Greater than or equal to 1 or Null.

Programmatic Pattern: ((Null | GreaterEqualP[1]) | Automatic) | Null

Index Matches to: Sample

BufferDiluent

The buffer used to dilute the sample such that ConcentratedBuffer is diluted by BufferDilutionFactor in the final solution. The ConcentratedBuffer and BufferDiluent will be combined and then mixed with the sample, where the combined volume of these buffers is the difference between the Amount and the total Volume.

Programmatic Pattern: ((Null | GreaterEqualP[0, 1]) | Automatic) | Null

Index Matches to: Sample

MixUntilDissolved

Indicates if the sample should be mixed in an attempt to completely dissolve any solid components following addition of liquid.

Default Value: Automatic

Default Calculation: Automatically set to True if MaxMixTime is specified, or False otherwise.

Pattern Description: True or False or Null.

Programmatic Pattern: ((Null | BooleanP) | Automatic) | Null

Index Matches to: Sample

IncubationTime

The duration for which the sample should be mixed/incubated following addition of liquid.

Default Value: Automatic

Default Calculation: Automatically set to 30 minutes unless MixType is set to Pipette, Swirl or Invert, in which case it is set to Null.

Pattern Description: Greater than or equal to 0 hours and less than or equal to 72 hours or Null.

Programmatic Pattern: ((Null | RangeP[0*Hour, 72*Hour]) | Automatic) | Null

Index Matches to: Sample

MaxIncubationTime

The maximum duration for which the samples should be mixed/incubated in an attempt to dissolve any solid components following addition of liquid.

Default Value: Automatic

Default Calculation: Automatically set based on the MixType if MixUntilDissolved is set to True. If MixUntilDissolved is False, resolves to Null.

Pattern Description: Greater than or equal to 1 second and less than or equal to 72 hours or Null.

Programmatic Pattern: ((Null | RangeP[1*Second, 72*Hour]) | Automatic) | Null

Index Matches to: Sample

Indicates if mixing/incubating are done for one sample after addition of liquid before advancing to the next (Serial) or all at once after liquid is added to all samples (Parallel).

Default Value: Parallel

Pattern Description: Serial or Parallel.

Programmatic Pattern: ReadOrderP

Post Experiment

SamplesOutStorageCondition

Default Value: Null

Programmatic Pattern: (Null | (Alternatives[SampleStorageTypeP | Disposal])) | Null

Index Matches to: Sample

MeasureWeight

Default Value: Automatic

Pattern Description: True or False or Null.

Programmatic Pattern: (BooleanP | Automatic) | Null

MeasureVolume

Default Value: Automatic

Pattern Description: True or False or Null.

Programmatic Pattern: (BooleanP | Automatic) | Null

ImageSample

Default Value: Automatic

Pattern Description: True or False or Null.

Programmatic Pattern: (BooleanP | Automatic) | Null

Dilute

Options

TotalVolume

The desired total volume of the sample plus diluent.

Programmatic Pattern: ((Null | GreaterEqualP[0, 1]) | Automatic) | Null

Index Matches to: Sample

MixUntilDissolved

Indicates if the sample should be mixed in an attempt to thoroughly mix the sample with the diluent.

Default Value: Automatic

Default Calculation: Automatically set to True if MaxIncubationTime is specified, or False otherwise.

Pattern Description: True or False or Null.

Programmatic Pattern: ((Null | BooleanP) | Automatic) | Null

Index Matches to: Sample

IncubationTime

The duration for which the sample should be mixed/incubated following addition of liquid.

Default Value: Automatic

Default Calculation: Automatically set to 30 minutes unless MixType is set to Pipette, Swirl or Invert, in which case it is set to Null.

Pattern Description: Greater than or equal to 0 hours and less than or equal to 72 hours or Null.

Programmatic Pattern: ((Null | RangeP[0*Hour, 72*Hour]) | Automatic) | Null

Index Matches to: Sample

MaxIncubationTime

The maximum duration for which the samples should be mixed/incubated in an attempt to dissolve any solid components following addition of liquid.

Default Value: Automatic

Default Calculation: Automatically set based on the MixType if MixUntilDissolved is set to True. If MixUntilDissolved is False, resolves to Null.

Pattern Description: Greater than or equal to 1 second and less than or equal to 72 hours or Null.

Programmatic Pattern: ((Null | RangeP[1*Second, 72*Hour]) | Automatic) | Null

Index Matches to: Sample

SamplesOutStorageCondition

Default Value: Null

Programmatic Pattern: (Null | (Alternatives[SampleStorageTypeP | Disposal])) | Null

Index Matches to: Sample

MeasureWeight

Default Value: Automatic

Pattern Description: True or False or Null.

Programmatic Pattern: (BooleanP | Automatic) | Null

MeasureVolume

Default Value: Automatic

Pattern Description: True or False or Null.

Programmatic Pattern: (BooleanP | Automatic) | Null

ImageSample

Default Value: Automatic

Pattern Description: True or False or Null.

Programmatic Pattern: (BooleanP | Automatic) | Null

Mixing

MixOrder

Indicates if mixing/incubating are done for one sample after addition of liquid before advancing to the next (Serial) or all at once after liquid is added to all samples (Parallel).

Default Value: Parallel

Pattern Description: Serial or Parallel.

Programmatic Pattern: ReadOrderP

MagneticBeadSeparation

Options

Nested Index Matches to: Sample

SampleOutLabel

The user defined word or phrase used to identify the collected sample during loading or elution, depending on the selection strategy, and is used for identification elsewhere in sample preparation. The SampleOutLabel is used to identify the sample collected during elution if SelectionStrategy->Positive, or to identify the sample collected during loading if SelectionStrategy->Negative.

Default Value: Automatic

Pattern Description: A string or list of one or more a string or Null entries.

Programmatic Pattern: ({(_String | Null)..} | _String) | Automatic

Index Matches to: Sample

Nested Index Matches to: Sample

ContainerOutLabel

The user defined word or phrase used to identify the container of the output sample that will be created in this experiment, and is used for identification elsewhere in sample preparation.

Specified if the target analyte (Positive) or contaminants (Negative) binds to the magnetic beads in order to isolate the target analyte. When the target analyte is bound to the magnetic beads (Positive), they are collected as SamplesOut during the elution step. When contaminants are bound to the magnetic beads (Negative), the target analyte remains in the supernatant and is collected as SamplesOut during the loading step.

Default Value: Positive

Pattern Description: Positive or Negative.

Programmatic Pattern: MagneticBeadSeparationSelectionStrategyP

SeparationMode

The mechanism used to selectively isolate or remove targeted components from the samples by magnetic beads. Options include NormalPhase, ReversePhase, IonExchange, Affinity. In NormalPhase mode, magnetic beads are coated with polar molecules (mainly pure silica) and the mobile phase less polar causing the adsorption of polar targeted components. In ReversePhase mode, magnetic beads are coated with hydrophobic groups on the surface to bind targeted components. In IonExchange mode, magnetic beads coated with ion-exchange groups ionically bind charged targeted components. In Affinity mode, magnetic beads are coated with functional groups that can covalently conjugate ligands on targeted components.

Default Value: Affinity

Pattern Description: NormalPhase, ReversePhase, IonExchange, or Affinity.

Programmatic Pattern: MagneticBeadSeparationModeP

ProcessingOrder

The order for processing samples in the experiment. Parallel indicates all samples are processed at the same time in all steps of the experiment, can only be used if the samples are provided in a flat list. Serial indicates samples are processed sequentially such that all steps of the experiment are completed for a given sample before processing the next, can only be used if the samples are provided in a flat list. Batch indicates the input is a nested list and each sample group is fully processed (in parallel) before moving to the next, can only be used if the samples are provided in a nested list.

Default Value: Automatic

Default Calculation: Automatically set to Parallel if SamplesIn is a list of samples and to Batch if SamplesIn is a list of lists of samples.

Pattern Description: Parallel, Batch, or Serial.

Programmatic Pattern: MagneticBeadSeparationProcessingOrderP | Automatic

NumberOfReplicates

The number of aliquots to generate from the input sample before loading to the magnetic beads.

Default Value: Null

Pattern Description: Greater than or equal to 2 and less than or equal to 500 in increments of 1 or Null.

Programmatic Pattern: RangeP[2, 500, 1] | Null

Preparation

Default Calculation: Automatically set to Refrigerator if Elution is set to True.

Index Matches to: Sample

Nested Index Matches to: Sample

PreWashMagnetizationTime

The duration of magnetizing the magnetic beads after PreWashMixTime has elapsed, in order to pull the magnetic beads to the perimeter of the container by applying a magnetic force, thus enables maximal aspiration of the used PreWashBuffer.

Default Value: Automatic

Default Calculation: Automatically set to 5 minutes if PreWash is set to True.

Pattern Description: Greater than or equal to 0 seconds and less than or equal to 72 hours or Null.

Programmatic Pattern: ((Null | RangeP[0*Second, $MaxExperimentTime]) | Automatic) | Null

Index Matches to: Sample

Nested Index Matches to: Sample

PreWashAspirationVolume

The volume of solution to aspirate out while the magnetic beads are magnetized and gathered to the side during each wash prior to equilibration.

Default Value: Automatic

Default Calculation: Automatically set to All for manual preparation, and set to PreWashBufferVolume for robotic preparation, if PreWash is set to True.

Pattern Description: All or Volume or Null.

Programmatic Pattern: ((Null | (All | RangeP[1*Microliter, 50*Milliliter])) | Automatic) | Null

Index Matches to: Sample

Nested Index Matches to: Sample

PreWashAspirationPosition

The location from which the solution is aspirated after PreWashMagnetizationTime. Top will aspirate PreWashAspirationPositionOffset below the Top of the container, Bottom will aspirate PreWashAspirationPositionOffset above the Bottom of the container, and LiquidLevel will aspirate PreWashAspirationPositionOffset below the liquid level of the sample in the container.

Default Value: Automatic

Default Calculation: Automatically set to Bottom if Preparation is Robotic and PreWash is True.

Pattern Description: Top, Bottom, or LiquidLevel or Null.

Programmatic Pattern: ((Null | MagneticBeadSeparationPipettingPositionP) | Automatic) | Null

Index Matches to: Sample

Nested Index Matches to: Sample

PreWashAspirationPositionOffset

The distance from the center of the well that the solution is aspirated after PreWashMagnetizationTime. The Z Offset is based on the PreWashAspirationPosition option -- measured as the height below the top of the well (Top), the height above the bottom of the well (Bottom), or the height below the detected liquid level (LiquidLevel). Please refer to the AspirationPosition diagram in the help file of ExperimentTransfer for more information. If an X and Y offset is not specified, the liquid will be aspirated in the center of the well, otherwise, -X/+X values will shift the position left and right, respectively, and -Y/+Y values will shift the position down and up, respectively.

Default Value: Automatic

Default Calculation: Automatically set to 0 Millimeter if MagnetizationRack is Model[Item,MagnetizationRack,"Alpaqua Magnum FLX Enhanced Universal Magnet 96-well Plate Rack"] and PreWashAspirationPosition is bottom, otherwise set to 2 Millimeter.

Pattern Description: {X,Y,Z} Coordinate Offset or Z Offset or Null.

Programmatic Pattern: ((Null | (GreaterEqualP[0*Millimeter] | Coordinate[{DistanceP, DistanceP, GreaterEqualP[0*Millimeter]}])) | Automatic) | Null

Index Matches to: Sample

Nested Index Matches to: Sample

PreWashCollectionContainer

The container(s) for collecting the aspirated used PreWashBuffer during the prewash(es) prior to equilibration. By default, the same container is selected for the repeated washes (i.e. aspirated samples in the repeated washes will be combined) unless different container objects are specified for the prewashes prior to equilibration.

Default Value: Automatic

Default Calculation: Automatically set to a container plate and its first available position. The container plate is selected by the function PreferredContainer given the volume of PreWashAspirationVolume for manual preparation, and is set to 2 mL Deep well plate for robotic preparation, if PreWash is set to True.

Pattern Description: Container or Container with Index or Container with Well or Container with Well and Index or list of one or more Container or Container with Index or Container with Well or Container with Well and Index or Null entries or Null.

Programmatic Pattern: ((Null | ({((ObjectP[{Object[Container], Model[Container]}] | _String) | {GreaterEqualP[1, 1], ObjectP[Model[Container]]} | {Alternatives @@ Flatten[AllWells[NumberOfWells -> 384]], ObjectP[Model[Container]]} | {Alternatives @@ Flatten[AllWells[NumberOfWells -> 384]], {GreaterEqualP[1, 1], ObjectP[{Model[Container]}]}} | Null)..} | ((ObjectP[{Object[Container], Model[Container]}] | _String) | {GreaterEqualP[1, 1], ObjectP[Model[Container]]} | {Alternatives @@ Flatten[AllWells[NumberOfWells -> 384]], ObjectP[Model[Container]]} | {Alternatives @@ Flatten[AllWells[NumberOfWells -> 384]], {GreaterEqualP[1, 1], ObjectP[{Model[Container]}]}}))) | Automatic) | Null

Index Matches to: Sample

Nested Index Matches to: Sample

NumberOfPreWashes

The number of times the magnetic beads are washed by adding PreWashBuffer, mixing, magnetization, and aspirating solution prior to equilibration.

Default Value: Automatic

Default Calculation: Automatically set to 1 if PreWash is set to True.

Pattern Description: Greater than or equal to 1 and less than or equal to 20 in increments of 1 or Null.

Programmatic Pattern: ((Null | RangeP[1, 20, 1]) | Automatic) | Null

Index Matches to: Sample

Nested Index Matches to: Sample

PreWashAirDry

Indicates if the magnetic beads are exposed to open air to evaporate the remaining PreWashBuffer following the final prewash prior to equilibration.

Default Value: Automatic

Default Calculation: Automatically set to False if PreWash is set to True.

Pattern Description: True or False or Null.

Programmatic Pattern: ((Null | BooleanP) | Automatic) | Null

Index Matches to: Sample

Nested Index Matches to: Sample

PreWashAirDryTime

The duration that the magnetic beads are exposed to open air to evaporate the remaining PreWashBuffer following the final prewash prior to equilibration.

Default Value: Automatic

Default Calculation: Automatically set to 1 Minute if PreWashAirDry is set to True.

Pattern Description: Greater than or equal to 0 seconds and less than or equal to 72 hours or Null.

Programmatic Pattern: ((Null | RangeP[0*Second, $MaxExperimentTime]) | Automatic) | Null

Index Matches to: Sample

Nested Index Matches to: Sample

Equilibration

Indicates if the magnetic beads are equilibrated to a condition for optimal bead-target binding prior to adding samples to the magnetic beads.

Default Value: Automatic

Default Calculation: Automatically set to True if other Equilibration options are set.

Pattern Description: True or False.

Programmatic Pattern: BooleanP | Automatic

Index Matches to: Sample

Nested Index Matches to: Sample

EquilibrationBuffer

The solution used for equilibrating the magnetic beads to a condition for optimal bead-target binding prior to adding samples to the magnetic beads.

Default Value: Automatic

Default Calculation: Automatically set to Model[Sample,"Milli-Q water"] if Equilibration is set to True.

Pattern Description: An object of type or subtype Model[Sample] or Object[Sample] or a prepared sample or Null.

Programmatic Pattern: ((Null | (ObjectP[{Model[Sample], Object[Sample]}] | _String)) | Automatic) | Null

Index Matches to: Sample

Nested Index Matches to: Sample

EquilibrationBufferVolume

The amount of EquilibrationBuffer to add to the magnetic beads for equilibration.

Default Value: Automatic

Default Calculation: If Equilibration is set to True, EquilibrationBufferVolume is automatically set to PreWashBufferVolume when PreWash is set to True, and is set to Volume when PreWash is set to False.

Pattern Description: Greater than or equal to 1 microliter and less than or equal to 50 milliliters or Null.

Programmatic Pattern: ((Null | RangeP[1*Microliter, 50*Milliliter]) | Automatic) | Null

Index Matches to: Sample

Nested Index Matches to: Sample

EquilibrationMix

Indicates if the solution is mixed following combination of EquilibrationBuffer and the magnetic beads.

Default Value: Automatic

Default Calculation: Automatically set to True if Equilibration is set to True and Equilibration MixType is not set to Null.

Pattern Description: True or False or Null.

Programmatic Pattern: ((Null | BooleanP) | Automatic) | Null

Index Matches to: Sample

Nested Index Matches to: Sample

EquilibrationMixType

The style of motion used to mix the suspension following the addition of the EquilibrationBuffer to the magnetic beads. Options include Roll, Vortex, Sonicate, Pipette, Invert, Stir, Shake, Homogenize, Swirl, Disrupt, Nutate.

Default Value: Automatic

Default Calculation: Automatically set based on the volume-to-mix (i.e. the volume of the combined EquilibrationBuffer and magnetic beads) and the EquilibrationMix options. Specifically, EquilibrationMixType is automatically set to Pipette when the volume-to-mix is greater than 20 Microliter and none of EquilibrationMixRate, EquilibrationMixTemperature, and EquilibrationMixTime is specified to non-default values; otherwise, EquilibrationMixType is automatically set to Vortex when Preparation is Manual, EquilibrationMixTemperature is Automatic or Ambient, and EquilibrationMixRate is specified to be greater than 600 RPM; otherwise, EquilibrationMixType is automatically set to Shake.

Pattern Description: Roll, Vortex, Sonicate, Pipette, Invert, Stir, Shake, Homogenize, Swirl, Disrupt, or Nutate or Null.

Programmatic Pattern: ((Null | MixTypeP) | Automatic) | Null

Index Matches to: Sample

Nested Index Matches to: Sample

EquilibrationMixTime

The duration during which the combined EquilibrationBuffer and magnetic beads are mixed.

Default Value: Automatic

Default Calculation: If EquilibrationMixType is among Disrupt, Nutate, Shake, Vortex, Roll, Stir, Homogenize, and Sonicate, EquilibrationMixTime is automatically set to 5 Minute for robotic preparation, and is set to 15 Minute for manual preparation.

Pattern Description: Greater than or equal to 0 minutes and less than or equal to 72 hours or Null.

Programmatic Pattern: ((Null | RangeP[0*Minute, $MaxExperimentTime]) | Automatic) | Null

Index Matches to: Sample

Nested Index Matches to: Sample

EquilibrationMixRate

The frequency of rotation used to mix the combined EquilibrationBuffer and magnetic beads.

Default Value: Automatic

Default Calculation: Automatically set to 300 RPM if EquilibrationMixType is Shake or Stir, to 1000 RPM if EquilibrationMixType is Vortex or Disrupt, and to 30 RPM if EquilibrationMixType is Nutate or Roll.

Pattern Description: Gravitational Acceleration (Acoustic Shaker Only) or RPM or Null.

Programmatic Pattern: ((Null | (RangeP[$MinMixRate, $MaxMixRate] | RangeP[0*GravitationalAcceleration, 100*GravitationalAcceleration])) | Automatic) | Null

Index Matches to: Sample

Nested Index Matches to: Sample

NumberOfEquilibrationMixes

The number of times that the combined EquilibrationBuffer and magnetic beads are mixed if EquilibrationMixType is Pipette or Invert.

Default Value: Automatic

Default Calculation: Automatically set to 20 if EquilibrationMixType is Pipette, Swirl or Invert.

Pattern Description: Greater than or equal to 1 and less than or equal to 50 in increments of 1 or Null.

Programmatic Pattern: ((Null | RangeP[1, 50, 1]) | Automatic) | Null

Index Matches to: Sample

Nested Index Matches to: Sample

EquilibrationMixVolume

The volume of the combined EquilibrationBuffer and magnetic beads that is pipetted up and down in order to mix, if EquilibrationMixType->Pipette.

Default Value: Automatic

Default Calculation: For robotic preparation, EquilibrationMixVolume is automatically set to 970 Microliter if 0.8*volume-to-mix (i.e.volume-to-mix is the volume of the combined EquilibrationBuffer and magnetic beads) is greater than 970 Microliter, and otherwise is set to the greater of 10 Microliter and 0.8*volume-to-mix. For manual preparation, EquilibrationMixVolume is automatically set to the lesser of 50 Milliliter and 0.8*volume-to-mix.

Pattern Description: Greater than or equal to 0.5 microliters and less than or equal to 50 milliliters or Null.

Programmatic Pattern: ((Null | RangeP[0.5*Microliter, 50*Milliliter]) | Automatic) | Null

Index Matches to: Sample

Nested Index Matches to: Sample

EquilibrationMixTemperature

The temperature of the device that is used to mix/incubate the combined EquilibrationBuffer and magnetic beads.

Default Value: Automatic

Default Calculation: Automatically set to Ambient if EquilibrationMix is set to True and EquilibrationMixType is not Null.

Pattern Description: Ambient or greater than or equal to -20 degrees Celsius and less than or equal to 500 degrees Celsius or Null.

Programmatic Pattern: ((Null | (RangeP[$MinIncubationTemperature, $MaxIncubationTemperature] | Ambient)) | Automatic) | Null

Index Matches to: Sample

Nested Index Matches to: Sample

EquilibrationMixTipType

The type of pipette tips used to mix the combined EquilibrationBuffer and magnetic beads. Options include Normal, Barrier, WideBore, GelLoading, Aspirator. This option can only be set if EquilibrationMixType->Pipette.

Default Value: Automatic

Default Calculation: Automatically set to WideBore for robotic preparation. For manual preparation, EquilibrationMixTipType is automatically set to WideBore if EquilibrationMixVolume is less or equal to 970 Microliter, to Normal if EquilibrationMixVolume is larger than 970 Microliter but less or equal to 5 Milliliter, and to Barrier if EquilibrationMixVolume is larger than 5 Milliliter.

Pattern Description: Normal, Barrier, WideBore, GelLoading, or Aspirator or Null.

Programmatic Pattern: ((Null | TipTypeP) | Automatic) | Null

Index Matches to: Sample

Nested Index Matches to: Sample

The container for collecting the aspirated used EquilibrationBuffer during the equilibration.

Default Value: Automatic

Default Calculation: Automatically set to a container plate and its first available position. The container plate is selected by the function PreferredContainer given the volume of EquilibrationAspirationVolume for manual preparation, and is set to 2 mL Deep well plate for robotic preparation, if Equilibration is set to True.

Index Matches to: Sample

Nested Index Matches to: Sample

EquilibrationAirDry

Indicates if the magnetic beads are exposed to open air to evaporate the remaining EquilibrationBuffer before contact with the input sample.

Default Value: Automatic

Default Calculation: Automatically set to False if Equilibration is set to True.

Pattern Description: True or False or Null.

Programmatic Pattern: ((Null | BooleanP) | Automatic) | Null

Index Matches to: Sample

Nested Index Matches to: Sample

EquilibrationAirDryTime

The duration that the magnetic beads are exposed to open air to evaporate the remaining EquilibrationBuffer before contact with the input sample.

Default Value: 5 minutes

Pattern Description: Greater than or equal to 0 seconds and less than or equal to 72 hours.

Programmatic Pattern: RangeP[0*Second, $MaxExperimentTime]

Index Matches to: Sample

Nested Index Matches to: Sample

The container for collecting the aspirated sample during loading. By default, the same container is selected for samples in the same pool (i.e. aspirated samples in the same pool will be combined) unless different container objects are specified for samples in the pool.

Default Value: Automatic

Default Calculation: Automatically set to a container plate and its first available position. The container plate is selected by the function PreferredContainer given the volume of LoadingAspirationVolume for manual preparation, and is set to 2 mL Deep well plate for robotic preparation, if Loading is set to True.

Programmatic Pattern: ({((ObjectP[{Object[Container], Model[Container]}] | _String) | {GreaterEqualP[1, 1], ObjectP[Model[Container]]} | {Alternatives @@ Flatten[AllWells[NumberOfWells -> 384]], ObjectP[Model[Container]]} | {Alternatives @@ Flatten[AllWells[NumberOfWells -> 384]], {GreaterEqualP[1, 1], ObjectP[{Model[Container]}]}} | Null)..} | ((ObjectP[{Object[Container], Model[Container]}] | _String) | {GreaterEqualP[1, 1], ObjectP[Model[Container]]} | {Alternatives @@ Flatten[AllWells[NumberOfWells -> 384]], ObjectP[Model[Container]]} | {Alternatives @@ Flatten[AllWells[NumberOfWells -> 384]], {GreaterEqualP[1, 1], ObjectP[{Model[Container]}]}})) | Automatic

Index Matches to: Sample

Nested Index Matches to: Sample

The material of the pipette tips used to aspirate and dispense the requested volume during the WashMix. This option can only be set if WashMixType->Pipette.

Default Value: Automatic

Default Calculation: Automatically set to Polypropylene if WashMixVolume is less or equal to 5 Milliliter, and to Glass if WashMixVolume is larger than 5 Milliliter.

Programmatic Pattern: ((Null | MaterialP) | Automatic) | Null

Index Matches to: Sample

Nested Index Matches to: Sample

WashMagnetizationTime

The duration of magnetizing the magnetic beads after WashMixTime has elapsed, in order to pull the magnetic beads to the perimeter of the container by applying a magnetic force, thus enables maximal aspiration of the used WashBuffer containing residual sample components that are not bound to the magnetic beads.

Default Value: Automatic

Default Calculation: Automatically set to 5 minutes if Wash is set to True.

Pattern Description: Greater than or equal to 0 seconds and less than or equal to 72 hours or Null.

Programmatic Pattern: ((Null | RangeP[0*Second, $MaxExperimentTime]) | Automatic) | Null

Index Matches to: Sample

Nested Index Matches to: Sample

WashAspirationVolume

The volume of solution to aspirate out while the magnetic beads are magnetized and gathered to the side during each wash prior to elution or optional SecondaryWash.

Default Value: Automatic

Default Calculation: Automatically set to All for manual preparation, and set to WashBufferVolume for robotic preparation.

Pattern Description: All or Volume or Null.

Programmatic Pattern: ((Null | (All | RangeP[1*Microliter, 50*Milliliter])) | Automatic) | Null

Index Matches to: Sample

Nested Index Matches to: Sample

WashAspirationPosition

The location from which the solution is aspirated after WashMagnetizationTime. Top will aspirate WashAspirationPositionOffset below the Top of the container, Bottom will aspirate WashAspirationPositionOffset above the Bottom of the container, and LiquidLevel will aspirate WashAspirationPositionOffset below the liquid level of the sample in the container.

Default Value: Automatic

Default Calculation: Automatically set to Bottom if Preparation->Robotic and Wash is True.

Pattern Description: Top, Bottom, or LiquidLevel or Null.

Programmatic Pattern: ((Null | MagneticBeadSeparationPipettingPositionP) | Automatic) | Null

Index Matches to: Sample

Nested Index Matches to: Sample

WashAspirationPositionOffset

The distance from the center of the well that the solution is aspirated after WashMagnetizationTime. The Z Offset is based on the WashAspirationPosition option -- measured as the height below the top of the well (Top), the height above the bottom of the well (Bottom), or the height below the detected liquid level (LiquidLevel). Please refer to the AspirationPosition diagram in the help file of ExperimentTransfer for more information. If an X and Y offset is not specified, the liquid will be aspirated in the center of the well, otherwise, -X/+X values will shift the position left and right, respectively, and -Y/+Y values will shift the position down and up, respectively.

Default Value: Automatic

Default Calculation: Automatically set to 0 Millimeter if MagnetizationRack is Model[Item,MagnetizationRack,"Alpaqua Magnum FLX Enhanced Universal Magnet 96-well Plate Rack"] and WashAspirationPosition is bottom, otherwise set to 2 Millimeter.

Pattern Description: {X,Y,Z} Coordinate Offset or Z Offset or Null.

Programmatic Pattern: ((Null | (GreaterEqualP[0*Millimeter] | Coordinate[{DistanceP, DistanceP, GreaterEqualP[0*Millimeter]}])) | Automatic) | Null

Index Matches to: Sample

The material of the pipette tips used to aspirate and dispense the requested volume during the SecondaryWashMix. This option can only be set if SecondaryWashMixType->Pipette.

Default Value: Automatic

Default Calculation: Automatically set to Polypropylene if SecondaryWashMixVolume is less or equal to 5 Milliliter, and to Glass if SecondaryWashMixVolume is larger than 5 Milliliter.

Programmatic Pattern: ((Null | MaterialP) | Automatic) | Null

Index Matches to: Sample

Nested Index Matches to: Sample

SecondaryWashMagnetizationTime

The duration of magnetizing the magnetic beads after SecondaryWashMixTime has elapsed, in order to pull the magnetic beads to the perimeter of the container by applying a magnetic force, thus enables maximal aspiration of the used SecondaryWashBuffer containing residual sample components that are not bound to the magnetic beads.

Default Value: Automatic

Default Calculation: Automatically set to 5 minutes if SecondaryWash is set to True.

Pattern Description: Greater than or equal to 0 seconds and less than or equal to 72 hours or Null.

Programmatic Pattern: ((Null | RangeP[0*Second, $MaxExperimentTime]) | Automatic) | Null

Index Matches to: Sample

Nested Index Matches to: Sample

SecondaryWashAspirationVolume

The volume of solution to aspirate out while the magnetic beads are magnetized and gathered to the side during each secondary wash prior to elution or optional TertiaryWash.

Default Value: Automatic

Default Calculation: Automatically set to All for manual preparation, and set to SecondaryWashBufferVolume for robotic preparation.

Pattern Description: All or Volume or Null.

Programmatic Pattern: ((Null | (All | RangeP[1*Microliter, 50*Milliliter])) | Automatic) | Null

Index Matches to: Sample

Nested Index Matches to: Sample

SecondaryWashAspirationPosition

The location from which the solution is aspirated after SecondaryWashMagnetizationTime. Top will aspirate SecondaryWashAspirationPositionOffset below the Top of the container, Bottom will aspirate SecondaryWashAspirationPositionOffset above the Bottom of the container, and LiquidLevel will aspirate SecondaryWashAspirationPositionOffset below the liquid level of the sample in the container.

Default Value: Automatic

Default Calculation: Automatically set to Bottom if Preparation->Robotic and SecondaryWash is True.

Pattern Description: Top, Bottom, or LiquidLevel or Null.

Programmatic Pattern: ((Null | MagneticBeadSeparationPipettingPositionP) | Automatic) | Null

Index Matches to: Sample

Nested Index Matches to: Sample

SecondaryWashAspirationPositionOffset

The distance from the center of the well that the solution is aspirated after SecondaryWashMagnetizationTime. The Z Offset is based on the SecondaryWashAspirationPosition option -- measured as the height below the top of the well (Top), the height above the bottom of the well (Bottom), or the height below the detected liquid level (LiquidLevel). Please refer to the AspirationPosition diagram in the help file of ExperimentTransfer for more information. If an X and Y offset is not specified, the liquid will be aspirated in the center of the well, otherwise, -X/+X values will shift the position left and right, respectively, and -Y/+Y values will shift the position down and up, respectively.

Default Value: Automatic

Default Calculation: Automatically set to 0 Millimeter if MagnetizationRack is Model[Item,MagnetizationRack,"Alpaqua Magnum FLX Enhanced Universal Magnet 96-well Plate Rack"] and SecondaryWashAspirationPosition is bottom, otherwise set to 2 Millimeter.

Pattern Description: {X,Y,Z} Coordinate Offset or Z Offset or Null.

Programmatic Pattern: ((Null | (GreaterEqualP[0*Millimeter] | Coordinate[{DistanceP, DistanceP, GreaterEqualP[0*Millimeter]}])) | Automatic) | Null

Index Matches to: Sample

The material of the pipette tips used to aspirate and dispense the requested volume during the TertiaryWashMix. This option can only be set if TertiaryWashMixType->Pipette.

Default Value: Automatic

Default Calculation: Automatically set to Polypropylene if TertiaryWashMixVolume is less or equal to 5 Milliliter, and to Glass if TertiaryWashMixVolume is larger than 5 Milliliter.

Programmatic Pattern: ((Null | MaterialP) | Automatic) | Null

Index Matches to: Sample

Nested Index Matches to: Sample

TertiaryWashMagnetizationTime

The duration of magnetizing the magnetic beads after TertiaryWashMixTime has elapsed, in order to pull the magnetic beads to the perimeter of the container by applying a magnetic force, thus enables maximal aspiration of the used TertiaryWashBuffer containing residual sample components that are not bound to the magnetic beads.

Default Value: Automatic

Default Calculation: Automatically set to 5 minutes if TertiaryWash is set to True.

Pattern Description: Greater than or equal to 0 seconds and less than or equal to 72 hours or Null.

Programmatic Pattern: ((Null | RangeP[0*Second, $MaxExperimentTime]) | Automatic) | Null

Index Matches to: Sample

Nested Index Matches to: Sample

TertiaryWashAspirationVolume

The volume of solution to aspirate out while the magnetic beads are magnetized and gathered to the side during each tertiary wash prior to elution or optional QuaternaryWash.

Default Value: Automatic

Default Calculation: Automatically set to All for manual preparation, and set to TertiaryWashBufferVolume for robotic preparation.

Pattern Description: All or Volume or Null.

Programmatic Pattern: ((Null | (All | RangeP[1*Microliter, 50*Milliliter])) | Automatic) | Null

Index Matches to: Sample

Nested Index Matches to: Sample

TertiaryWashAspirationPosition

The location from which the solution is aspirated after TertiaryWashMagnetizationTime. Top will aspirate TertiaryWashAspirationPositionOffset below the Top of the container, Bottom will aspirate TertiaryWashAspirationPositionOffset above the Bottom of the container, and LiquidLevel will aspirate TertiaryWashAspirationPositionOffset below the liquid level of the sample in the container.

Default Value: Automatic

Default Calculation: Automatically set to Bottom if Preparation->Robotic and TertiaryWash is True.

Pattern Description: Top, Bottom, or LiquidLevel or Null.

Programmatic Pattern: ((Null | MagneticBeadSeparationPipettingPositionP) | Automatic) | Null

Index Matches to: Sample

Nested Index Matches to: Sample

TertiaryWashAspirationPositionOffset

The distance from the center of the well that the solution is aspirated after TertiaryWashMagnetizationTime. The Z Offset is based on the TertiaryWashAspirationPosition option -- measured as the height below the top of the well (Top), the height above the bottom of the well (Bottom), or the height below the detected liquid level (LiquidLevel). Please refer to the AspirationPosition diagram in the help file of ExperimentTransfer for more information. If an X and Y offset is not specified, the liquid will be aspirated in the center of the well, otherwise, -X/+X values will shift the position left and right, respectively, and -Y/+Y values will shift the position down and up, respectively.

Default Value: Automatic

Default Calculation: Automatically set to 0 Millimeter if MagnetizationRack is Model[Item,MagnetizationRack,"Alpaqua Magnum FLX Enhanced Universal Magnet 96-well Plate Rack"] and TertiaryWashAspirationPosition is bottom, otherwise set to 2 Millimeter.

Pattern Description: {X,Y,Z} Coordinate Offset or Z Offset or Null.

Programmatic Pattern: ((Null | (GreaterEqualP[0*Millimeter] | Coordinate[{DistanceP, DistanceP, GreaterEqualP[0*Millimeter]}])) | Automatic) | Null

Index Matches to: Sample

The material of the pipette tips used to aspirate and dispense the requested volume during the QuaternaryWashMix. This option can only be set if QuaternaryWashMixType->Pipette.

Default Value: Automatic

Default Calculation: Automatically set to Polypropylene if QuaternaryWashMixVolume is less or equal to 5 Milliliter, and to Glass if QuaternaryWashMixVolume is larger than 5 Milliliter.

Programmatic Pattern: ((Null | MaterialP) | Automatic) | Null

Index Matches to: Sample

Nested Index Matches to: Sample

QuaternaryWashMagnetizationTime

The duration of magnetizing the magnetic beads after QuaternaryWashMixTime has elapsed, in order to pull the magnetic beads to the perimeter of the container by applying a magnetic force, thus enables maximal aspiration of the used QuaternaryWashBuffer containing residual sample components that are not bound to the magnetic beads.

Default Value: Automatic

Default Calculation: Automatically set to 5 minutes if QuaternaryWash is set to True.

Pattern Description: Greater than or equal to 0 seconds and less than or equal to 72 hours or Null.

Programmatic Pattern: ((Null | RangeP[0*Second, $MaxExperimentTime]) | Automatic) | Null

Index Matches to: Sample

Nested Index Matches to: Sample

QuaternaryWashAspirationVolume

The volume of solution to aspirate out while the magnetic beads are magnetized and gathered to the side during each quaternary wash prior to elution or optional QuinaryWash.

Default Value: Automatic

Default Calculation: Automatically set to All for manual preparation, and set to QuaternaryWashBufferVolume for robotic preparation.

Pattern Description: All or Volume or Null.

Programmatic Pattern: ((Null | (All | RangeP[1*Microliter, 50*Milliliter])) | Automatic) | Null

Index Matches to: Sample

Nested Index Matches to: Sample

QuaternaryWashAspirationPosition

The location from which the solution is aspirated after QuaternaryWashMagnetizationTime. Top will aspirate QuaternaryWashAspirationPositionOffset below the Top of the container, Bottom will aspirate QuaternaryWashAspirationPositionOffset above the Bottom of the container, and LiquidLevel will aspirate QuaternaryWashAspirationPositionOffset below the liquid level of the sample in the container.

Default Value: Automatic

Default Calculation: Automatically set to Bottom if Preparation->Robotic and QuaternaryWash is True.

Pattern Description: Top, Bottom, or LiquidLevel or Null.

Programmatic Pattern: ((Null | MagneticBeadSeparationPipettingPositionP) | Automatic) | Null

Index Matches to: Sample

Nested Index Matches to: Sample

QuaternaryWashAspirationPositionOffset

The distance from the center of the well that the solution is aspirated after QuaternaryWashMagnetizationTime. The Z Offset is based on the QuaternaryWashAspirationPosition option -- measured as the height below the top of the well (Top), the height above the bottom of the well (Bottom), or the height below the detected liquid level (LiquidLevel). Please refer to the AspirationPosition diagram in the help file of ExperimentTransfer for more information. If an X and Y offset is not specified, the liquid will be aspirated in the center of the well, otherwise, -X/+X values will shift the position left and right, respectively, and -Y/+Y values will shift the position down and up, respectively.

Default Value: Automatic

Default Calculation: Automatically set to 0 Millimeter if MagnetizationRack is Model[Item,MagnetizationRack,"Alpaqua Magnum FLX Enhanced Universal Magnet 96-well Plate Rack"] and QuaternaryWashAspirationPosition is bottom, otherwise set to 2 Millimeter.

Pattern Description: {X,Y,Z} Coordinate Offset or Z Offset or Null.

Programmatic Pattern: ((Null | (GreaterEqualP[0*Millimeter] | Coordinate[{DistanceP, DistanceP, GreaterEqualP[0*Millimeter]}])) | Automatic) | Null

Index Matches to: Sample

The material of the pipette tips used to aspirate and dispense the requested volume during the QuinaryWashMix. This option can only be set if QuinaryWashMixType->Pipette.

Default Value: Automatic

Default Calculation: Automatically set to Polypropylene if QuinaryWashMixVolume is less or equal to 5 Milliliter, and to Glass if QuinaryWashMixVolume is larger than 5 Milliliter.

Programmatic Pattern: ((Null | MaterialP) | Automatic) | Null

Index Matches to: Sample

Nested Index Matches to: Sample

QuinaryWashMagnetizationTime

The duration of magnetizing the magnetic beads after QuinaryWashMixTime has elapsed, in order to pull the magnetic beads to the perimeter of the container by applying a magnetic force, thus enables maximal aspiration of the used QuinaryWashBuffer containing residual sample components that are not bound to the magnetic beads.

Default Value: Automatic

Default Calculation: Automatically set to 5 minutes if QuinaryWash is set to True.

Pattern Description: Greater than or equal to 0 seconds and less than or equal to 72 hours or Null.

Programmatic Pattern: ((Null | RangeP[0*Second, $MaxExperimentTime]) | Automatic) | Null

Index Matches to: Sample

Nested Index Matches to: Sample

QuinaryWashAspirationVolume

The volume of solution to aspirate out while the magnetic beads are magnetized and gathered to the side during each quinary wash prior to elution or optional SenaryWash.

Default Value: Automatic

Default Calculation: Automatically set to All for manual preparation, and set to QuinaryWashBufferVolume for robotic preparation.

Pattern Description: All or Volume or Null.

Programmatic Pattern: ((Null | (All | RangeP[1*Microliter, 50*Milliliter])) | Automatic) | Null

Index Matches to: Sample

Nested Index Matches to: Sample

QuinaryWashAspirationPosition

The location from which the solution is aspirated after QuinaryWashMagnetizationTime. Top will aspirate QuinaryWashAspirationPositionOffset below the Top of the container, Bottom will aspirate QuinaryWashAspirationPositionOffset above the Bottom of the container, and LiquidLevel will aspirate QuinaryWashAspirationPositionOffset below the liquid level of the sample in the container.

Default Value: Automatic

Default Calculation: Automatically set to Bottom if Preparation->Robotic and QuinaryWash is True.

Pattern Description: Top, Bottom, or LiquidLevel or Null.

Programmatic Pattern: ((Null | MagneticBeadSeparationPipettingPositionP) | Automatic) | Null

Index Matches to: Sample

Nested Index Matches to: Sample

QuinaryWashAspirationPositionOffset

The distance from the center of the well that the solution is aspirated after QuinaryWashMagnetizationTime. The Z Offset is based on the QuinaryWashAspirationPosition option -- measured as the height below the top of the well (Top), the height above the bottom of the well (Bottom), or the height below the detected liquid level (LiquidLevel). Please refer to the AspirationPosition diagram in the help file of ExperimentTransfer for more information. If an X and Y offset is not specified, the liquid will be aspirated in the center of the well, otherwise, -X/+X values will shift the position left and right, respectively, and -Y/+Y values will shift the position down and up, respectively.

Default Value: Automatic

Default Calculation: Automatically set to 0 Millimeter if MagnetizationRack is Model[Item,MagnetizationRack,"Alpaqua Magnum FLX Enhanced Universal Magnet 96-well Plate Rack"] and QuinaryWashAspirationPosition is bottom, otherwise set to 2 Millimeter.

Pattern Description: {X,Y,Z} Coordinate Offset or Z Offset or Null.

Programmatic Pattern: ((Null | (GreaterEqualP[0*Millimeter] | Coordinate[{DistanceP, DistanceP, GreaterEqualP[0*Millimeter]}])) | Automatic) | Null

Index Matches to: Sample

The material of the pipette tips used to aspirate and dispense the requested volume during the SenaryWashMix. This option can only be set if SenaryWashMixType->Pipette.

Default Value: Automatic

Default Calculation: Automatically set to Polypropylene if SenaryWashMixVolume is less or equal to 5 Milliliter, and to Glass if SenaryWashMixVolume is larger than 5 Milliliter.

Programmatic Pattern: ((Null | MaterialP) | Automatic) | Null

Index Matches to: Sample

Nested Index Matches to: Sample

SenaryWashMagnetizationTime

The duration of magnetizing the magnetic beads after SenaryWashMixTime has elapsed, in order to pull the magnetic beads to the perimeter of the container by applying a magnetic force, thus enables maximal aspiration of the used SenaryWashBuffer containing residual sample components that are not bound to the magnetic beads.

Default Value: Automatic

Default Calculation: Automatically set to 5 minutes if SenaryWash is set to True.

Pattern Description: Greater than or equal to 0 seconds and less than or equal to 72 hours or Null.

Programmatic Pattern: ((Null | RangeP[0*Second, $MaxExperimentTime]) | Automatic) | Null

Index Matches to: Sample

Nested Index Matches to: Sample

SenaryWashAspirationVolume

The volume of solution to aspirate out while the magnetic beads are magnetized and gathered to the side during each senary wash prior to elution or optional SeptenaryWash.

Default Value: Automatic

Default Calculation: Automatically set to All for manual preparation, and set to SenaryWashBufferVolume for robotic preparation.

Pattern Description: All or Volume or Null.

Programmatic Pattern: ((Null | (All | RangeP[1*Microliter, 50*Milliliter])) | Automatic) | Null

Index Matches to: Sample

Nested Index Matches to: Sample

SenaryWashAspirationPosition

The location from which the solution is aspirated after SenaryWashMagnetizationTime. Top will aspirate SenaryWashAspirationPositionOffset below the Top of the container, Bottom will aspirate SenaryWashAspirationPositionOffset above the Bottom of the container, and LiquidLevel will aspirate SenaryWashAspirationPositionOffset below the liquid level of the sample in the container.

Default Value: Automatic

Default Calculation: Automatically set to Bottom if Preparation->Robotic and SenaryWash is True.

Pattern Description: Top, Bottom, or LiquidLevel or Null.

Programmatic Pattern: ((Null | MagneticBeadSeparationPipettingPositionP) | Automatic) | Null

Index Matches to: Sample

Nested Index Matches to: Sample

SenaryWashAspirationPositionOffset

The distance from the center of the well that the solution is aspirated after SenaryWashMagnetizationTime. The Z Offset is based on the SenaryWashAspirationPosition option -- measured as the height below the top of the well (Top), the height above the bottom of the well (Bottom), or the height below the detected liquid level (LiquidLevel). Please refer to the AspirationPosition diagram in the help file of ExperimentTransfer for more information. If an X and Y offset is not specified, the liquid will be aspirated in the center of the well, otherwise, -X/+X values will shift the position left and right, respectively, and -Y/+Y values will shift the position down and up, respectively.

Default Value: Automatic

Default Calculation: Automatically set to 0 Millimeter if MagnetizationRack is Model[Item,MagnetizationRack,"Alpaqua Magnum FLX Enhanced Universal Magnet 96-well Plate Rack"] and SenaryWashAspirationPosition is bottom, otherwise set to 2 Millimeter.

Pattern Description: {X,Y,Z} Coordinate Offset or Z Offset or Null.

Programmatic Pattern: ((Null | (GreaterEqualP[0*Millimeter] | Coordinate[{DistanceP, DistanceP, GreaterEqualP[0*Millimeter]}])) | Automatic) | Null

Index Matches to: Sample

The material of the pipette tips used to aspirate and dispense the requested volume during the SeptenaryWashMix. This option can only be set if SeptenaryWashMixType->Pipette.

Default Value: Automatic

Default Calculation: Automatically set to Polypropylene if SeptenaryWashMixVolume is less or equal to 5 Milliliter, and to Glass if SeptenaryWashMixVolume is larger than 5 Milliliter.

Programmatic Pattern: ((Null | MaterialP) | Automatic) | Null

Index Matches to: Sample

Nested Index Matches to: Sample

SeptenaryWashMagnetizationTime

The duration of magnetizing the magnetic beads after SeptenaryWashMixTime has elapsed, in order to pull the magnetic beads to the perimeter of the container by applying a magnetic force, thus enables maximal aspiration of the used SeptenaryWashBuffer containing residual sample components that are not bound to the magnetic beads.

Default Value: Automatic

Default Calculation: Automatically set to 5 minutes if SeptenaryWash is set to True.

Pattern Description: Greater than or equal to 0 seconds and less than or equal to 72 hours or Null.

Programmatic Pattern: ((Null | RangeP[0*Second, $MaxExperimentTime]) | Automatic) | Null

Index Matches to: Sample

Nested Index Matches to: Sample

SeptenaryWashAspirationVolume

The volume of solution to aspirate out while the magnetic beads are magnetized and gathered to the side during each septenary wash prior to elution.

Default Value: Automatic

Default Calculation: Automatically set to All for manual preparation, and set to SeptenaryWashBufferVolume for robotic preparation.

Pattern Description: All or Volume or Null.

Programmatic Pattern: ((Null | (All | RangeP[1*Microliter, 50*Milliliter])) | Automatic) | Null

Index Matches to: Sample

Nested Index Matches to: Sample

SeptenaryWashAspirationPosition

The location from which the solution is aspirated after SeptenaryWashMagnetizationTime. Top will aspirate SeptenaryWashAspirationPositionOffset below the Top of the container, Bottom will aspirate SeptenaryWashAspirationPositionOffset above the Bottom of the container, and LiquidLevel will aspirate SeptenaryWashAspirationPositionOffset below the liquid level of the sample in the container.

Default Value: Automatic

Default Calculation: Automatically set to Bottom if Preparation->Robotic and SeptenaryWash is True.

Pattern Description: Top, Bottom, or LiquidLevel or Null.

Programmatic Pattern: ((Null | MagneticBeadSeparationPipettingPositionP) | Automatic) | Null

Index Matches to: Sample

Nested Index Matches to: Sample

SeptenaryWashAspirationPositionOffset

The distance from the center of the well that the solution is aspirated after SeptenaryWashMagnetizationTime. The Z Offset is based on the SeptenaryWashAspirationPosition option -- measured as the height below the top of the well (Top), the height above the bottom of the well (Bottom), or the height below the detected liquid level (LiquidLevel). Please refer to the AspirationPosition diagram in the help file of ExperimentTransfer for more information. If an X and Y offset is not specified, the liquid will be aspirated in the center of the well, otherwise, -X/+X values will shift the position left and right, respectively, and -Y/+Y values will shift the position down and up, respectively.

Default Value: Automatic

Default Calculation: Automatically set to 0 Millimeter if MagnetizationRack is Model[Item,MagnetizationRack,"Alpaqua Magnum FLX Enhanced Universal Magnet 96-well Plate Rack"] and SeptenaryWashAspirationPosition is bottom, otherwise set to 2 Millimeter.

Pattern Description: {X,Y,Z} Coordinate Offset or Z Offset or Null.

Programmatic Pattern: ((Null | (GreaterEqualP[0*Millimeter] | Coordinate[{DistanceP, DistanceP, GreaterEqualP[0*Millimeter]}])) | Automatic) | Null

Index Matches to: Sample

The material of the pipette tips used to aspirate and dispense the requested volume during the ElutionMix. This option can only be set if ElutionMixType->Pipette.

Default Value: Automatic

Default Calculation: Automatically set to Polypropylene if ElutionMixVolume is less or equal to 5 Milliliter, and to Glass if ElutionMixVolume is larger than 5 Milliliter.

Programmatic Pattern: ((Null | MaterialP) | Automatic) | Null

Index Matches to: Sample

Nested Index Matches to: Sample

ElutionMagnetizationTime

The duration of magnetizing the magnetic beads after ElutionMixTime has elapsed, in order to pull the magnetic beads to the perimeter of the container by applying a magnetic force, thus enables maximal aspiration of the ElutionBuffer containing sample components released from the magnetic beads.

Default Value: Automatic

Default Calculation: Automatically set to 5 minutes if Elution is set to True.

Pattern Description: Greater than or equal to 0 seconds and less than or equal to 72 hours or Null.

Programmatic Pattern: ((Null | RangeP[0*Second, $MaxExperimentTime]) | Automatic) | Null

Index Matches to: Sample

Nested Index Matches to: Sample

ElutionAspirationVolume

The amount of solution to aspirate out while the magnetic beads are magnetized and gathered to the side during each elution.

Default Value: Automatic

Default Calculation: Automatically set to All for manual preparation, and set to ElutionBufferVolume for robotic preparation, if Elution is set to True. Set to Null if Elution is set to False.

Pattern Description: All or Volume or Null.

Programmatic Pattern: ((Null | (All | RangeP[1*Microliter, 50*Milliliter])) | Automatic) | Null

Index Matches to: Sample

Nested Index Matches to: Sample

ElutionAspirationPosition

The location from which the solution is aspirated after ElutionMagnetizationTime. Top will aspirate ElutionAspirationPositionOffset below the Top of the container, Bottom will aspirate ElutionAspirationPositionOffset above the Bottom of the container, and LiquidLevel will aspirate ElutionAspirationPositionOffset below the liquid level of the sample in the container

Default Value: Automatic

Default Calculation: Automatically set to Bottom if Preparation->Robotic and Elution is True.

Pattern Description: Top, Bottom, or LiquidLevel or Null.

Programmatic Pattern: ((Null | MagneticBeadSeparationPipettingPositionP) | Automatic) | Null

Index Matches to: Sample

Nested Index Matches to: Sample

ElutionAspirationPositionOffset

The distance from the center of the well that the solution is aspirated after ElutionMagnetizationTime. The Z Offset is based on the ElutionAspirationPosition option -- measured as the height below the top of the well (Top), the height above the bottom of the well (Bottom), or the height below the detected liquid level (LiquidLevel). Please refer to the AspirationPosition diagram in the help file of ExperimentTransfer for more information. If an X and Y offset is not specified, the liquid will be aspirated in the center of the well, otherwise, -X/+X values will shift the position left and right, respectively, and -Y/+Y values will shift the position down and up, respectively.

Default Value: Automatic

Default Calculation: Automatically set to 0 Millimeter if MagnetizationRack is Model[Item,MagnetizationRack,"Alpaqua Magnum FLX Enhanced Universal Magnet 96-well Plate Rack"] and ElutionAspirationPosition is bottom, otherwise set to 2 Millimeter.

Pattern Description: {X,Y,Z} Coordinate Offset or Z Offset or Null.

Programmatic Pattern: ((Null | (GreaterEqualP[0*Millimeter] | Coordinate[{DistanceP, DistanceP, GreaterEqualP[0*Millimeter]}])) | Automatic) | Null

Index Matches to: Sample

Nested Index Matches to: Sample

ElutionCollectionContainer

The container(s) for collecting the aspirated sample(s) during elution(s). By default, the same container is selected for the repeated elutions (i.e. aspirated samples in the repeated elutions will be combined) unless different container objects are specified for the elutions.

Default Value: Automatic

Default Calculation: Automatically set to a container plate and its first available position. The container plate is selected by the function PreferredContainer given the volume of ElutionAspirationVolume for manual preparation, and is set to 2 mL Deep well plate for robotic preparation, if Elution is set to True.

Index Matches to: Sample

Nested Index Matches to: Sample

NumberOfElutions

The number of times the bound components on the magnetic beads are eluted by adding ElutionBuffer, mixing, magnetization, and aspirating solution.

Default Value: Automatic

Indicates if this sample should be mixed while incubated, prior to starting the experiment.

Default Value: Automatic

Default Calculation: Automatically resolves to True if any Mix related options are set. Otherwise, resolves to False.

Pattern Description: True or False or Null.

Programmatic Pattern: ((Null | BooleanP) | Automatic) | Null

Index Matches to: Sample

Nested Index Matches to: Sample

MixType

Indicates the style of motion used to mix the sample, prior to starting the experiment.

The desired position in the corresponding AliquotContainer in which the aliquot samples will be placed.

Default Value: Automatic

Default Calculation: Automatically resolves to A1 in containers with only one position. For plates, fills wells in the order provided by the function AllWells.

Pattern Description: Any well from A1 to H12 or Null.

Programmatic Pattern: ((Null | WellPositionP) | Automatic) | Null

Index Matches to: Sample

Nested Index Matches to: Sample

The instrument that should be used to perform the filtration.

Default Value: Automatic

Default Calculation: Will automatically resolved to an instrument appropriate for the filtration type.

Index Matches to: Sample

Nested Index Matches to: Sample

Filter

The filter that should be used to remove impurities from the SamplesIn prior to starting the experiment.

Default Value: Automatic

Default Calculation: Will automatically resolve to a filter appropriate for the filtration type and instrument.

Pattern Description: An object of type or subtype Model[Container, Plate, Filter], Model[Container, Vessel, Filter], or Model[Item, Filter] or Null.

Programmatic Pattern: ((Null | ObjectP[{Model[Container, Plate, Filter], Model[Container, Vessel, Filter], Model[Item, Filter]}]) | Automatic) | Null

Index Matches to: Sample

Nested Index Matches to: Sample

FilterMaterial

The membrane material of the filter that should be used to remove impurities from the SamplesIn prior to starting the experiment.

Default Value: Automatic

Default Calculation: Resolves to an appropriate filter material for the given sample is Filtration is set to True.

Programmatic Pattern: ((Null | FilterMembraneMaterialP) | Automatic) | Null

Index Matches to: Sample

Nested Index Matches to: Sample

PrefilterMaterial

The material from which the prefilter filtration membrane should be made of to remove impurities from the SamplesIn prior to starting the experiment.

Default Value: Automatic

Default Calculation: By default, no prefiltration is performed on samples, even when Filter->True.

Programmatic Pattern: ((Null | FilterMembraneMaterialP) | Automatic) | Null

Index Matches to: Sample

Nested Index Matches to: Sample

FilterPoreSize

The pore size of the filter that should be used when removing impurities from the SamplesIn prior to starting the experiment.

Default Value: Automatic

Default Calculation: Resolves to an appropriate filter pore size for the given sample is Filtration is set to True.

Programmatic Pattern: ((Null | FilterSizeP) | Automatic) | Null

Index Matches to: Sample

Nested Index Matches to: Sample

The desired container filtered samples should be produced in or transferred into by the end of filtration, with indices indicating grouping of samples in the same plates, if desired.

Default Value: Automatic

Default Calculation: Automatically set as the PreferredContainer for the Volume of the sample. For plates, attempts to fill all wells of a single plate with the same model before using another one.

Pattern Description: An object of type or subtype Model[Container] or Object[Container] or a prepared sample or {Index, Container} or Null.

Index Matches to: Sample

Nested Index Matches to: Sample

FilterAliquotDestinationWell

The desired position in the corresponding AliquotContainer in which the aliquot samples will be placed.

Default Value: Automatic

Default Calculation: Automatically resolves to A1 in containers with only one position. For plates, fills wells in the order provided by the function AllWells.

Pattern Description: Any well from A1 to H12 or Null.

Programmatic Pattern: ((Null | WellPositionP) | Automatic) | Null

Index Matches to: Sample

Nested Index Matches to: Sample

A user defined word or phrase used to identify the samples after they are aliquotted, for use in downstream unit operations.

Default Value: Automatic

Pattern Description: A string or Null.

Programmatic Pattern: ((Null | _String) | Automatic) | Null

Index Matches to: Sample

Nested Index Matches to: Sample

TargetConcentration

Default Value: Automatic

Default Calculation: Automatically calculated based on aliquot and buffer volumes.

Pattern Description: Greater than 0 molar or greater than 0 grams per liter or Null.

Programmatic Pattern: ((Null | (GreaterP[0*Molar] | GreaterP[0*(Gram/Liter)])) | Automatic) | Null

Index Matches to: Sample

Nested Index Matches to: Sample

TargetConcentrationAnalyte

The substance whose final concentration is attained with the TargetConcentration option.

Default Value: Automatic

Programmatic Pattern: ((Null | ObjectP[IdentityModelTypes]) | Automatic) | Null

Index Matches to: Sample

Nested Index Matches to: Sample

AssayVolume

The desired total volume of the aliquoted sample plus dilution buffer.

Default Value: Automatic

Default Calculation: Automatically determined based on Volume and TargetConcentration option values.

Pattern Description: Greater than or equal to 1 microliter and less than or equal to 20 liters or Null.

Programmatic Pattern: ((Null | RangeP[1*Microliter, 20*Liter]) | Automatic) | Null

Index Matches to: Sample

Nested Index Matches to: Sample

The buffer that should be added to any aliquots requiring dilution, where the volume of this buffer added is the difference between the AliquotAmount and the total AssayVolume.

Default Value: Automatic

Default Calculation: Automatically resolves to Model[Sample, "Milli-Q water"] if ConcentratedBuffer is not specified; otherwise, resolves to Null.

Pattern Description: An object of type or subtype Model[Sample] or Object[Sample] or a prepared sample or Null.

Programmatic Pattern: ((Null | (ObjectP[{Model[Sample], Object[Sample]}] | _String)) | Automatic) | Null

Index Matches to: Sample

Nested Index Matches to: Sample

AliquotSampleStorageCondition

The non-default conditions under which any aliquot samples generated by this experiment should be stored after the protocol is completed.

Default Value: Automatic

Programmatic Pattern: ((Null | (SampleStorageTypeP | Disposal)) | Automatic) | Null

Index Matches to: Sample

Nested Index Matches to: Sample

DestinationWell

The desired position in the corresponding AliquotContainer in which the aliquot samples will be placed.

Default Value: Automatic

Default Calculation: Automatically resolves to A1 in containers with only one position. For plates, fills wells in the order provided by the function AllWells.

Pattern Description: Any well from A1 to H12 or list of one or more any well from A1 to H12 or any well from A1 to H12 entries or list of one or more any well from A1 to H12 or any well from A1 to H12 or list of one or more any well from A1 to H12 or any well from A1 to H12 entries entries or Null.

Programmatic Pattern: ((WellPositionP | {((Automatic | Null) | WellPositionP)..} | {(((Automatic | Null) | WellPositionP) | {((Automatic | Null) | WellPositionP)..})..}) | Automatic) | Null

AliquotContainer

Default Value: Automatic

Pattern Description: An object of type or subtype Model[Container] or Object[Container] or a prepared sample or Automatic or Null or {Index, Container} or list of one or more an object of type or subtype Model[Container] or Object[Container] or a prepared sample or Automatic or Null entries or list of one or more Automatic or Null or {Index, Container} entries or list of one or more list of one or more an object of type or subtype Model[Container] or Object[Container] or a prepared sample or Automatic or Null entries entries or list of one or more list of one or more Automatic or Null or {Index, Container} entries entries.

Programmatic Pattern: (((ObjectP[{Model[Container], Object[Container]}] | _String) | (Automatic | Null) | {GreaterEqualP[1, 1] | (Automatic | Null), (ObjectP[{Model[Container], Object[Container]}] | _String) | (Automatic | Null)} | {((ObjectP[{Model[Container], Object[Container]}] | _String) | (Automatic | Null))..} | {({GreaterEqualP[1, 1] | (Automatic | Null), (ObjectP[{Model[Container], Object[Container]}] | _String) | (Automatic | Null)} | (Automatic | Null))..} | {{((ObjectP[{Model[Container], Object[Container]}] | _String) | (Automatic | Null))..}..} | {{({GreaterEqualP[1, 1] | (Automatic | Null), (ObjectP[{Model[Container], Object[Container]}] | _String) | (Automatic | Null)} | (Automatic | Null))..}..}) | Automatic) | Null

AliquotPreparation

Indicates the desired scale at which liquid handling used to generate aliquots will occur.

Default Value: Automatic

Default Calculation: Automatic resolution will occur based on manipulation volumes and container types.

Pattern Description: Manual or Robotic or Null.

Programmatic Pattern: (PreparationMethodP | Automatic) | Null

ConsolidateAliquots

Indicates if identical aliquots should be prepared in the same container/position.

Default Value: Automatic

Pattern Description: True or False or Null.

Programmatic Pattern: (BooleanP | Automatic) | Null

LiquidLiquidExtraction

Options

Index Matches to: Sample

SamplePhase

Indicates the phase of the input sample before extraction has taken place. Aqueous means that the input sample is liquid and composed only of aqueous solvents. Organic means that the input sample is liquid and composed only of organic solvents. Biphasic means that the input sample is liquid and composed of both aqueous and organic solvents that are separated into two defined layers. Unknown means that the sample phase is unknown, which will result in both Aqueous and Organic solvents being added to the input sample.

Default Value: Automatic

Default Calculation: Automatically set according to the PredictSamplePhase[...] function which looks at the composition of the sample's Solvent field to predict the sample's phase. If there is not enough information about the input sample for PredictSamplePhase[...] to predict the input sample's phase, a warning will be thrown. For more information, please refer to the PredictSamplePhase help file.

Pattern Description: Aqueous, Organic, Biphasic, or Unknown.

Programmatic Pattern: SamplePhaseP | Automatic

Index Matches to: Sample

TargetPhase

Indicates the phase that is collected during the extraction (and carried forward to further experiments as defined by the SamplesOut field), which is the liquid layer that contains more of the dissolved TargetAnalyte after the SettlingTime has elapsed and the phases are separated.

Default Value: Automatic

Default Calculation: Automatically set to the phase (Organic or Aqueous) that the TargetAnalyte is more likely to be present in after extraction according to the PredictDestinationPhase[...] function. If there is not enough information for PredictDestinationPhase[...] to predict the destination phase of the target molecule, a warning will be thrown and TargetPhase will default to Aqueous. For more information, please refer to the PredictDestinationPhase help file.

Pattern Description: Aqueous or Organic.

Programmatic Pattern: TargetPhaseP | Automatic

Index Matches to: Sample

TargetLayer

Indicates if the target phase is the top layer or the bottom layer of the separated solution. Note that when performing multiple rounds of extraction (NumberOfExtractions), the composition of the Aqueous and Organic layers during the first round of extraction can differ from the rest of the extraction rounds. For example, if SamplePhase->Biphasic, TargetPhase->Organic, and SelectionStrategy->Positive, the original organic layer from the input sample will be extracted and in subsequent rounds of extraction, OrganicSolvent added to the Aqueous impurity layer to extract more TargetAnalyte (the specified OrganicSolvent option can differ from the density of the original sample's organic layer). This can result in TargetLayer being different during the first round of extraction compared to the rest of the extraction rounds.

A user defined word or phrase used to identify the container that contains the waste layer sample, for use in downstream unit operations.

Default Value: Automatic

Pattern Description: A string.

Programmatic Pattern: _String | Automatic

Index Matches to: Sample

Preparation

Default Value: Null

Pattern Description: Storage Object or Storage Type or Null.

Programmatic Pattern: (Null | ((SampleStorageTypeP | Disposal) | ObjectP[Model[StorageCondition]])) | Null

Index Matches to: Sample

Post Experiment

SamplesInStorageCondition

Default Value: Null

Programmatic Pattern: (Null | (Alternatives[SampleStorageTypeP | Disposal])) | Null

Index Matches to: Sample

MeasureWeight

Default Value: Automatic

Pattern Description: True or False or Null.

Programmatic Pattern: (BooleanP | Automatic) | Null

MeasureVolume

Default Value: Automatic

Pattern Description: True or False or Null.

Programmatic Pattern: (BooleanP | Automatic) | Null

ImageSample

Default Value: Automatic

Pattern Description: True or False or Null.

Programmatic Pattern: (BooleanP | Automatic) | Null

Precipitate

Options

Default Calculation: Automatically set to Model[Instrument, LiquidHandler, "bioSTAR"] if Sterile is set to True, and sample contains mammalian cell lines. Or, RoboticInstrument is automatically set to Model[Instrument, LiquidHandler, "microbioSTAR"] if Sterile is set to True and sample contains non-mammalian cell lines. Otherwise RoboticInstrument is set to Model[Instrument, LiquidHandler, "Super STAR"].

Pattern Description: An object of type or subtype Model[Instrument, LiquidHandler] or Object[Instrument, LiquidHandler]

Programmatic Pattern: ObjectP[{Model[Instrument, LiquidHandler], Object[Instrument, LiquidHandler]}] | Automatic

Preparation

Default Value: Robotic

Pattern Description: Robotic.

Programmatic Pattern: Robotic

WorkCell

Indicates the work cell that this primitive will be run on if Preparation->Robotic.

Default Value: Automatic

Default Calculation: Automatically set to STAR if Preparation->Robotic.

Pattern Description: STAR, bioSTAR, or microbioSTAR or Null.

Programmatic Pattern: ((STAR | bioSTAR | microbioSTAR) | Automatic) | Null

Precipitation

PrecipitationReagent

A reagent which, when added to the sample, will help form the precipitate and encourage it to crash out of solution so that it can be collected if it will contain the target molecules, or discarded if the target molecules will only remain in the liquid phase.

Default Value: Automatic

Default Calculation: Automatically set to Model[Sample, StockSolution, "5M Sodium Chloride"] if TargetPhase is set to Liquid otherwise PrecipitationReagent is set to Model[Sample, "Isopropanol"].

Pattern Description: An object of type or subtype Object[Sample] or Model[Sample] or a prepared sample.

Programmatic Pattern: (ObjectP[{Object[Sample], Model[Sample]}] | _String) | Automatic

Index Matches to: Sample

PrecipitationReagentVolume

The volume of PrecipitationReagent that will be added to the sample to help form the precipitate and encourage it to crash out of solution.

Default Value: Automatic

Default Calculation: Automatically set to the lesser of 50% of the input sample's volume or 80% of the maximum volume of the container minus the volume of input samples in order to not overflow the container. PrecipitationReagentVolume will resolve to a minimum of 1 Microliter.

Pattern Description: Greater than or equal to 0 microliters and less than or equal to 200 milliliters.

Programmatic Pattern: RangeP[0*Microliter, $MaxRoboticTransferVolume] | Automatic

Index Matches to: Sample

PrecipitationReagentTemperature

The temperature that the PrecipitationReagent is incubated at for the PrecipitationReagentEquilibrationTime before being added to the sample, which will help form the precipitate and encourage it to crash out of solution once it has been added to the sample.

Default Value: Ambient

Pattern Description: Ambient or Temperature or Null.

Programmatic Pattern: (Null | (Ambient | RangeP[$MinIncubationTemperature, $MaxIncubationTemperature])) | Null

Index Matches to: Sample

PrecipitationReagentEquilibrationTime

The minimum duration for which the PrecipitationReagent will be kept at PrecipitationReagentTemperature before being added to the sample, which will help form the precipitate and encourage it to crash out of solution once it has been added to the sample.

Default Value: 5 minutes

Pattern Description: Greater than or equal to 0 minutes and less than or equal to 72 hours or Null.

Programmatic Pattern: (Null | RangeP[0*Minute, $MaxExperimentTime]) | Null

Index Matches to: Sample

The duration for which the combined sample and PrecipitationReagent are left to settle, at the specified PrecipitationTemperature, in order to encourage crashing of precipitant following any mixing.

Default Value: 15 minutes

Pattern Description: Greater than or equal to 0 minutes and less than or equal to 72 hours or Null.

Programmatic Pattern: (Null | RangeP[0*Minute, $MaxExperimentTime]) | Null

Index Matches to: Sample

PrecipitationInstrument

The instrument used maintain the sample temperature at PrecipitationTemperature while the sample and PrecipitationReagent are left to settle, in order to encourage crashing of precipitant following any mixing.

Default Value: Automatic

Default Calculation: Automatically set to Model[Instrument, Shaker, "Inheco Incubator Shaker DWP"] if PrecipitationTime is greater than 0 Minute and PrecipitationTemperature is greater than 70 Celsius. Otherwise PrecipitationInstrument is set to Model[Instrument, Shaker, "Inheco ThermoshakeAC"] if PrecipitationTime is greater than 0 Minute.

Pattern Description: An object of type or subtype Model[Instrument, Shaker], Object[Instrument, Shaker], Model[Instrument, HeatBlock], or Object[Instrument, HeatBlock] or Null.

Programmatic Pattern: ((Null | ObjectP[{Model[Instrument, Shaker], Object[Instrument, Shaker], Model[Instrument, HeatBlock], Object[Instrument, HeatBlock]}]) | Automatic) | Null

Index Matches to: Sample

PrecipitationTemperature

The temperature at which the incubation device's heating/cooling block is maintained during the PrecipitationTime in order to encourage crashing out of precipitant.

Default Value: Automatic

Default Calculation: Automatically set to GxF if PrefilterPoreSize is specified and SeparationTechnique is set to Filter.

Programmatic Pattern: ((Null | FilterMembraneMaterialP) | Automatic) | Null

Index Matches to: Sample

PoreSize

The pore size of the filter which is designed such that molecules larger than the specified pore size should not pass through this filter.

Default Value: Automatic

Default Calculation: If SeparationTechnique is set to Filter, then PoreSize is automatically set to the PoreSize of Filter, if it is specified. Otherwise, PoreSize is set to .22 Micron if MembraneMaterial is set.

Programmatic Pattern: ((Null | FilterSizeP) | Automatic) | Null

Index Matches to: Sample

MembraneMaterial

The material from which the filtration membrane is composed. Solvents used should be carefully selected to be compatible with the membrane material.

Default Value: Automatic

Default Calculation: If SeparationTechnique is set to Filter, then MembraneMaterial is automatically set to the MembraneMaterial of Filter, if it is specified. Otherwise, MembraneMaterial is automatically set to PES if a filter pore size is set.

Programmatic Pattern: ((Null | FilterMembraneMaterialP) | Automatic) | Null

Index Matches to: Sample

FilterPosition

The desired position in the Filter in which the samples are placed for the filtering.

Default Value: Automatic

Default Calculation: If the input sample is already in a filter, and SeparationTechnique is set to Filter, then FilterPosition is automatically set to the current position. Otherwise, FilterPosition is set to the first empty position in the filter based on the search order of A1, A2, A3 ... P22, P23, P24.

Pattern Description: Any well from A1 to P24 or Null.

Programmatic Pattern: ((Null | WellPositionP) | Automatic) | Null

Index Matches to: Sample

When FilterStorageCondition is not set to Disposal, FilterStorageCondition is the set of parameters that define the environmental conditions under which the filter used by this experiment will be stored after the protocol is completed.

Default Value: Automatic

Default Calculation: If TargetPhase is set to Solid, SeparationTechnique is set to Filter, and ResuspensionBuffer is not set to None, then FilterStorageCondition is automatically set to the StorageCondition of the sample. Otherwise, if SeparationTechnique is set to Filter and TargetPhase is set to Liquid, FilterStorageCondition is automatically set to Disposal.

Pattern Description: Storage Object or Storage Type or Null.

Index Matches to: Sample

UnprecipitatedSampleContainerOut

The container that will contain the liquid phase after it is separated from the precipitated solid.

Default Value: Automatic

Default Calculation: If NumberOfWashes is set to a number greater than 0 then WashCentrifugeIntensity is automatically set to 3600 GravitationalAcceleration if either PelletCentrifuge or FiltrationCentrifuge is set to Model[Instrument, Centrifuge, "HiG4"] or 2800 RPM if either PelletCentrifuge or FiltrationCentrifuge is set to Model[Instrument, Centrifuge, "VSpin"].

Programmatic Pattern: ((Null | (RangeP[0*RPM, $MaxCentrifugeSpeed] | RangeP[0*GravitationalAcceleration, $MaxRelativeCentrifugalForce])) | Automatic) | Null

Index Matches to: Sample

WashPressure

The target pressure applied to the filter containing the retentate and WashSolution in order to facilitate the solution's passage through the filter to help further wash impurities from the retentate.

Default Value: Automatic

Default Calculation: If FiltrationTechnique is set to AirPressure and NumberOfWashes is set to a number greater than 0, then WashPressure is automatically set to 40 PSI.

Pattern Description: Greater than or equal to 0 pounds‐force per inch squared and less than or equal to 40 pounds‐force per inch squared or Null.

Programmatic Pattern: ((Null | RangeP[0*PSI, $MaxRoboticAirPressure]) | Automatic) | Null

Index Matches to: Sample

WashSeparationTime

The duration for which the samples are exposed to WashPressure or WashCentrifugeIntensity in order to separate the WashSolution from the solid. If SeparationTechnique is set to Filter, then this separation is performed by passing the WashSolution through Filter by applying force of either WashPressure (if FiltrationTechnique is set to AirPressure) or WashCentrifugeIntensity (if FiltrationTechnique is set to Centrifuge). If SeparationTechnique is set to Pellet, then centrifugal force of WashCentrifugeIntensity is applied to encourage the solid to remain as, or return to, a pellet at the bottom of the container.

Default Value: Automatic

Default Calculation: If NumberOfWashes greater than 0, then WashSeparationTime is automatically set to 3 Minute if FiltrationTechnique is set to a AirPressure, or otherwise WashSeparationTime is set to 20 Minute.

Pattern Description: Greater than or equal to 0 minutes and less than or equal to 72 hours or Null.

Programmatic Pattern: ((Null | RangeP[0*Minute, $MaxExperimentTime]) | Automatic) | Null

Index Matches to: Sample

DryingTemperature

The temperature at which the incubation device's heating/cooling block is maintained for the duration of DryingTime after removal of WashSolution, in order to evaporate any residual WashSolution.

Default Value: Automatic

Default Calculation: Automatically set to Ambient if TargetPhase is set to Solid.

Pattern Description: Ambient or Temperature or Null.

Programmatic Pattern: ((Null | (Ambient | RangeP[$MinIncubationTemperature, $MaxIncubationTemperature])) | Automatic) | Null

Index Matches to: Sample

DryingTime

The amount of time for which the solid will be exposed to open air at DryingTemperature following final removal of WashSolution, in order to evaporate any residual WashSolution.

Default Calculation: If TargetPhase is set to Liquid, then UnprecipitatedSampleStorageCondition is automatically set to StorageCondition of SampleIn.

Pattern Description: Storage Object or Storage Type or Null.

Index Matches to: Sample

UnprecipitatedSampleLabel

A user defined word or phrase used to identify the liquid phase that is separated during this unit operation. If SeparationTechnique is set to Filter, then the sample is the filtrate after it is separated from the molecules too large to pass through the filter. If SeparationTechnique is set to Pellet, then the sample is the supernatant aspirated after the solid is pelleted using centrifugal force. This label is for use in downstream unit operations.

Default Value: Automatic

Default Calculation: If TargetPhase is set to Liquid then LiquidSampleLabel is automatically set to "precipitated liquid phase sample #".

Pattern Description: A string or Null.

Programmatic Pattern: ((Null | _String) | Automatic) | Null

Index Matches to: Sample

UnprecipitatedSampleContainerLabel

A user defined word or phrase used to identify the container that contains the liquid phase that is separated during this unit operation. If SeparationTechnique is set to Filter, then the sample contained in the container is the filtrate after it is separated from the molecules too large to pass through the filter. If SeparationTechnique is set to Pellet, then the sample contained in the container is the supernatant aspirated after the solid is pelleted using centrifugal force. This label is for use in downstream unit operations.

Default Value: Automatic

Default Calculation: If TargetPhase is set to Liquid then FiltrateContainerLabel is automatically set to "precipitated liquid phase container #".

Pattern Description: A string or Null.

Programmatic Pattern: ((Null | _String) | Automatic) | Null

Index Matches to: Sample

Post Experiment

SamplesInStorageCondition

Default Value: Null

Programmatic Pattern: (Null | (Alternatives[SampleStorageTypeP | Disposal])) | Null

Index Matches to: Sample

MeasureWeight

Default Value: Automatic

Pattern Description: True or False or Null.

Programmatic Pattern: (BooleanP | Automatic) | Null

MeasureVolume

Default Value: Automatic

Pattern Description: True or False or Null.

Programmatic Pattern: (BooleanP | Automatic) | Null

ImageSample

Default Value: Automatic

Pattern Description: True or False or Null.

Programmatic Pattern: (BooleanP | Automatic) | Null

Experiment Options

General

OptimizeUnitOperations

Indicates if the input list of unit operations should be automatically reordered to optimize the efficiency in which they will be executed in the lab.

Default Value: True

Pattern Description: True or False.

Programmatic Pattern: BooleanP

CoverAtEnd

Indicates if covers are placed on all plates after a group of robotic unit operations to decrease evaporation, if Preparation -> Robotic and WorkCell -> bioSTAR or STAR. Note the qPix does not have the ability to cover plates so CoverAtEnd cannot be set to True for protocols involving PickColonies, StreakCells, or SpreadCells unit operations.

Basic Examples using the cell preparation unit operations:

Generate a protocol based on a single incubate cells unit operation. Note that only Plates can be incubated robotically since the robotic cell incubator can only fit plates:

Generate a protocol based on a single quantify cells unit operation:

Generate a protocol based on a single inoculate liquid media unit operation. Note that only inoculate source types of liquid media and solid media are supported robotically. Inoculation of LiquidMedia source sample is performed on a liquid handler, and inoculation of SolidMedia source sample is performed on a colony handler:

Generate a protocol based on a single spread cells unit operation:

Generate a protocol based on a single streak cells unit operation:

Generate a protocol based on a single pick colonies unit operation:

Generate a protocol based on a single quantify colonies unit operation:

Generate a protocol based on a single image colonies unit operation:

Generate a protocol based on a single lyse cells unit operation:

Generate a protocol based on a single wash cells unit operation:

Generate a protocol based on a single nephelometry unit operation:

Generate a protocol based on a single nephelometry kinetics unit operation:

Basic Examples using the unit operations shared with robotic sample preparation:

Aliquot a cell sample into a deep well plate. Note that setting OptimizeUnitOperations->False makes the optimizer not touch our transfer order:

Transfer a cell sample into a PCR plate and directly perform PCR on it:

Examples using a variety of unit operations:

Colony analysis workflow starting with spreading cells, incubation, then colonies are picked and lysed for crude lysate PCR amplification. For workflow that involves multiple work cells, ExperimentCellPreparation needs to be called, and a script is generated:

Generate a protocol using four plate readers unit operations on the bioSTAR to characterize cell samples in a plate:

IncubateCells examples:

Incubate a suspension bacterial sample for 3 hours using a robotic liquid handler and its integrations, quantifying the cell concentration every 1 hour using an absorbance measurement until an OD600 of at least 0.8 is obtained:

QuantifyCells examples:

Use Methods option to specify the desired quantification method(s) for measuring the cell concentration:

Prepare sample on a liquid handler plate, and measures the cell concentration robotically:

Use AbsorbanceMethod to specify the desired absorbance method for measuring the cell concentration:

Use MultiMethodAliquots option to specify whether aliquots are shared across different quantification methods:

Use QuantificationUnit to specify the desired cell concentration unit to convert to after measuring the samples with different quantification methods:

Use Absorbance/NephelometryStandardCurve/Coefficient options to specify the desired standard curve to use to convert the experimental result to the desired QuantificationUnit after measuring the samples with different quantification methods:

InoculateLiquidMedia examples:

Inoculating from a solid media by picking colonies that are fluorescing using the Fluorescence primitive:

Inoculating from a solid media by having the picked colonies placed into LiquidMedia and then mixed by pipette, so they can be further grown:

Perform an inoculation from suspended cells on a liquid handler:

Perform an inoculation from suspended cells via a pipette:

SpreadCells examples:

Spread a cell suspension on an omnitray:

Spread a cell suspension on an omnitray in a custom plus shaped pattern:

Perform a serial dilution before spreading:

Create 4 replicates by linear diluting before spreading:

Perform a streaking from a freeze-dried cell sample:

Perform a streaking from a frozen glycerol sample:

StreakCells examples:

Streak a cell suspension on an omnitray:

Streak a cell suspension on an omnitray in 4 segments and 8 hatches per segment:

Streak a cell suspension on an omnitray in a custom plus shaped pattern:

Perform a streaking from a freeze-dried cell sample:

Perform a streaking from a frozen glycerol sample:

Perform a serial dilution before streaking:

Create 4 replicates by linear diluting before spreading:

PickColonies examples:

Use the Absorbance primitive to perform a blue white screen:

Pick colonies after they have been classified by multiple features. In this case the large fluorescing colonies would be picked:

Have the picked colonies placed into LiquidMedia and then mixed by pipette, so they can be further grown:

Have the picked colonies placed onto SolidMedia so they can be further grown:

Have the picked colonies placed onto SolidMedia by specifying a custom placement pattern, so they can be further grown. {0 Millimeter, 0 Millimeter is the center of the destination well}:

QuantifyColonies examples:

Quantify colonies on a solid media plate by size with Diameter primitive:

Quantify only white colonies prepared by Blue-White Screening with Absorbance primitive:

Quantify only colonies that are fluorescing with Fluorescing primitive:

Quantify colonies after they have been classified by multiple features. In this case the large fluorescing colonies would be counted:

New colony identity model is created to be used to characterize colonies on images:

ImageColonies examples:

Plate with only solid agar and without cells can be examined to check contamination:

ImagingStrategies can be specified:

LyseCells examples:

Perform a Lyse Cells experiment on a sample using a preset Method:

Up to three lysis steps with unique lysis solutions, volumes, mixing and incubation conditions can be performed:

Specify TargetCellCount to automatically Aliquot a desired number of cells:

Specify TargetCellConcentration to automatically dilute the sample to a desired number cell concentration:

Pellet the cell sample prior to lysis to remove unwanted media:

Clarify the resulting lysate by centrifugation to remove cellular debris:

Aliquot samples containing suspended cells into a new container:

WashCells examples:

Perform a Wash Cells experiment on a sample using a present Method:

Perform a Wash Cells experiment on suspension cell samples:

Perform a Wash Cells experiment on adherent cell samples:

Clarify how many times of wash cycles are applied to wash the cell samples:

Clarify the options for mixing the wash solution with the cells during washing:

Clarify the options for mixing the fresh media with the cells after washing:

Nephelometry examples:

If QuantifyCellCount is set to True, each sample must have a Model[Cell] Analyte with a StandardCurve that can convert RNU to Cell/mL. The number of cells in each sample will be calculated based on the nephelometry reading and the previously determined fit in StandardCurves. If there are multiple standard curves that can convert between RNU and Cell/mL, the standard curve with the acquisition parameters (BeamAperture, BeamIntensity, IntegrationTime) closest to the acquisition parameters specified in the current experiment is used :

Multiple plate reading unit operations can be used in one RoboticCellPreparation call:

NephelometryKinetics examples:

The density of measurements can be increased in an area of interest of the kinetic curve, and up to 4 windows can be specified. In this example, the plate will be read every 15 minutes for 1 hour, then every minute for 15 minutes, then every 15 minutes for 1 hour, then every 30 seconds for 5 minutes:

To specify injections, use the InjectionSample, InjectionTime, and InjectionVolume options. The sample, time, and volume options are index matched to the input samples allowing you to control the wells which receive injections and the volumes of those injections. In the example below, 50 Microliter of myInjectionSample1 is injected into each well, and then myInjectionSample2 is injected at different volumes into the first two wells but not the third:

If quantifying, the samples should be cells, and the Analyte for each sample must have the StandardCurvess field informed. The number of cells in each sample will be calculated based on the nephelometry reading and the previously determined fit in StandardCurvess:

Preferred Input Containers

Multi-well SBS Format Plates for bioSTAR

Omni Tray for qPix

Round-Bottom Plates for qPix

2mL and 50mL Tubes

Warnings and Errors

Messages (1)

WorkCellIsIncompatibleWithMethod (1)

WorkCell types bioSTAR and microbioSTAR are only compatible with ExperimentRoboticCellPreparation and STAR is only compatible with ExperimentRoboticSamplePreparation:

Possible Issues

SBS Microplate Dimensions

SBS microplates can be used on all robotic liquid handler deck positions designed for such plates; however, when plates are used on certain positions such as HeaterShaker, HeaterCoolerShaker, Tilt, or stacked on top of other plates, the precise positioning of these plates is important. HeaterCooler positions, for example, have a flat table-like protrusion that interfaces with the cavity on the bottom of some plates. For this reason, many dimensions of plates are stored in SLL and accessed by the robotic method compiler to create accurate labware models for use on liquid handling robots. If these dimensions are not correctly measured and recorded, the robotic liquid handler might pipet inaccurately, which could result in inefficient liquid extraction, pipet tips going in the wrong wells, or damage to tips or plates.

Wide Bore Tip Transfer Dead Volume

In robotic liquid transfer or pipette mix, when using wide bore Hamilton pipette tips to aspirate samples from VBottom containers, higher dead volumes are required to guarantee the successful transfers. Please make sure the samples have enough volumes if usage of wide bore tips is desired.

Deep-well plate on qPix (for SpreadCells and StreakCells only)

Using regular deep-well plate as source containers on qPix colony handler may lead to unstable pipetting performance. We recommend using U-Bottom round-well deep plate. Please refer to the PreferredInputContainers sections for specific container models.

Last modified on Mon 30 Dec 2024 11:04:58