PottersWheel Function Reference

The Application Programming Interface

PottersWheel 2.1.13, 2011-11-16 (454 interface functions)

Function details also available from command line: help FunctionName

To search for a function using a word appearing in the function help: pws keyword

All functions within a single file.

PottersWheel
pc
pe
pw
pwAdaptFitToLevelOfHistoryStorage
pwAdaptInstructions
pwAddA
pwAddC
pwAddConstraint
pwAddData
pwAddDataFromDb
pwAddDataFromLibrary
pwAddDynamicalParameters
pwAddE
pwAddF
pwAddFunction
pwAddInstructions
pwAddK
pwAddModel
pwAddModelFromLibrary
pwAddModelsFromFolder
pwAddODE
pwAddObservations
pwAddP
pwAddR
pwAddRepository
pwAddRule
pwAddS
pwAddStartValues
pwAddU
pwAddV
pwAddX
pwAddY
pwAddZ
pwAnalysisOfFits
pwAnalysisOfFitsForDerivedParameters
pwAnalysisOfResiduals
pwAnalysisOfStandardDeviations
pwAppend
pwAppendFitHistoryOfRepository
pwArrange
pwArrangeAllOpenFigures
pwAutoResetQRNG
pwBenchmark
pwCalcFitGroupID
pwCalculateConstraints
pwCalculateDerivedParameters
pwCalculateFitsOfAnalysis
pwCalculateResiduals
pwCharacteristicsOfSystemResponse
pwCheckArgument
pwCheckForStiffness
pwCheckSystem
pwCleanUp
pwClear
pwClearFitHistory
pwCloseFigures
pwCombine
pwCompareFiles
pwCompareIntegrators
pwCompareReactionNetworks
pwCompile
pwCompileFortranIntegrators
pwCompleteModel
pwConfidenceIntervals
pwConfiguration
pwConnectNames
pwConvertCustomFormatToPW
pwConvertSbToolboxModelToPW
pwCopyCurrentAxesToFigA
pwCopyCurrentAxesToFigB
pwCopyCurrentAxesToFigC
pwCopyCurrentAxesToFigD
pwCopyDataFromLibrary
pwCopyModelFromLibrary
pwDataAndFits
pwDbAddExperiment
pwDbBrowser
pwDbCreate
pwDbGetTags
pwDbRemoveExperiment
pwDbSelectExperiment
pwDbSelectFile
pwDbSelectStimulations
pwDbShowExperiments
pwDbShowStimulations
pwDelete
pwDeleteModelDataConnections
pwDeleteOutliers
pwDeleteStimuli
pwDesigner
pwDesignerApplyCellDesignerLayout
pwDesignerApplyPottersWheelLayout
pwDesignerArrange
pwDesignerAutomaticAnchorPositions
pwDesignerAutomaticLayout
pwDesignerChangeNetworkSize
pwDesignerChangeSpeciesSize
pwDesignerCloseAll
pwDesignerGetLimits
pwDesignerHighlightSpecies
pwDesignerLengthOfReactionLines
pwDesignerNumberOfSpeciesOverlaps
pwDesignerOptimalSpeciesSize
pwDesignerOptimizePositions
pwDesignerRun
pwDesignerSavePngForEachSpecies
pwDesignerShapeOfSpeciesClass
pwDesignerTransformPositions
pwDesignerUpdate
pwDisturb
pwDisturbedParameters
pwDoseResponse
pwDraw
pwDrivingInputTypeConversion
pwDuplicate
pwEdit
pwEnsureLocalMexFiles
pwEnsureValidConfig
pwEqualizer
pwExcelToTextFile
pwExplodeSpecies
pwExploreFolder
pwExportCouplesToLatex
pwExportCouplesToMatlab
pwExportCouplesToPWODE
pwExportCouplesToSBML
pwExportCouplesToTXT
pwExportCouplesToXPP
pwExportModelToHTML
pwExportModelToMathematica
pwExportModelToSBML
pwExportModelToSbToolbox2
pwExtractCellDesignerInformation
pwExtractRules
pwF1
pwF2
pwF3
pwF4
pwF5
pwFastIntegration
pwFastPlotting
pwFileIsAModel
pwFit
pwFitBoost
pwFitDeviation
pwFitDynamicParameters
pwFitHistory
pwFitHistoryAppendManualFit
pwFitHistoryClear
pwFitHistoryDeleteFits
pwFitHistoryGetFitGroups
pwFitHistoryGetFits
pwFitHistoryMergeFitSequences
pwFitScalingParameters
pwFitSequence
pwFitSequenceAnalysis
pwFitSequencePlots
pwFitSequenceResults
pwFitSettings
pwFitStartValues
pwFixParameters
pwForceTimeDependentView
pwForcedCompilation
pwGetA
pwGetAssemblyState
pwGetBestFit
pwGetC
pwGetChisqAndN
pwGetChisqThreshold
pwGetClassFields
pwGetConfig
pwGetConstraint
pwGetCurrentDataSet
pwGetCurrentDrivingFunction
pwGetDataSet
pwGetDefaultConfig
pwGetDefaultCustomFormatOptions
pwGetDrivingFunction
pwGetDrivingFunctionCont
pwGetDrivingFunctionPulse
pwGetDrivingFunctionsFromFile
pwGetE
pwGetEmptyModel
pwGetFieldtype
pwGetFitParameterValuesByID
pwGetFitParameters
pwGetFitsOfAnalysis
pwGetFitsOfCurrentSelectedCouple
pwGetFitsOfSelectedCouple
pwGetFixedParameters
pwGetHandlerEqualizer
pwGetHandlerMainGUI
pwGetIDs
pwGetInfluencedSpecies
pwGetIntegrator
pwGetIntegratorName
pwGetInvolvedSpecies
pwGetK
pwGetKDialog
pwGetListOfParameters
pwGetModelElement
pwGetModelPlottingConfig
pwGetModelState
pwGetNeighbourSpecies
pwGetNumberOfCouples
pwGetNumberOfDataSets
pwGetNumberOfFittedCouples
pwGetNumberOfFittedDataPoints
pwGetNumberOfTrajectoryFigures
pwGetP
pwGetParameterValues
pwGetParameterValuesByID
pwGetPlottingData
pwGetPlottingData2
pwGetPlottingDataForStimDepView
pwGetQRNGIndex
pwGetR
pwGetRateSignature
pwGetReactionAutoID
pwGetRule
pwGetS
pwGetSelectedModel
pwGetSmallParsForFit
pwGetStimulusField
pwGetStoichiometricMatrix
pwGetStoredOptimizationJacobian
pwGetU
pwGetUDialog
pwGetV
pwGetX
pwGetXDialog
pwGetY
pwGetZ
pwGoToToolboxFolder
pwGoodnessOfFit
pwGraph
pwHomepage
pwIDSO
pwIncludeFileInRepository
pwIncludeModel
pwInfo
pwInfoPlotsFitting
pwInitialize
pwInputDesigner
pwInputDesignerGUI
pwInputFunctionToString
pwInstall
pwInstallSundialsTB
pwIntegrate
pwIntegrationTimeAlongFitTrajectory
pwLRT
pwLicense
pwListK
pwLoadConfig
pwLoadConfigFromMFunction
pwLoadConfigFromMatFile
pwLoadFitsFromFile
pwLoadRepository
pwLogChangeFitParameter
pwMatch
pwMaxValues
pwModelDefinitionGUI
pwModelDesigner
pwModelInfo
pwModelIntegrationSettingToString
pwModelTablesGUI
pwMota
pwNewModel
pwODEsToReactions
pwOpenODE
pwOptimizationSetUserFunction
pwOptimizationUseUserFunction
pwOverwrite
pwParseAndShow
pwPause
pwPlayRingIn
pwPlayTada
pwPle
pwPleCalculate
pwPleClear
pwPleCorrelationMatrix
pwPleDirectStep
pwPleFit
pwPleInit
pwPlePlot
pwPlePlotRelations
pwPlePrint
pwPleProgressiveStep
pwPleSaveExtremeParameterSets
pwPleSearchOptimum
pwPleSetParsForFit
pwPleTrajectories
pwPlot
pwPlotExtremeSettings
pwPlotMultipleParameterSettings
pwPlottingAddGroup
pwPlottingLoadPlotSettings
pwPlottingSavePlotSettingsToFile
pwPlottingSetVisibleIDs
pwPlottingStorePlotSettings
pwPlugInMOTASaveResult
pwPropertiesOfDataFile
pwQuasiRandomNumbersExtended
pwRandomizedParameters
pwReactionToString
pwReduceFitHistorySize
pwReduceRepositorySize
pwReduceStimuli
pwRegexpRep
pwRegexpRepTester
pwReload
pwReportAppendComments
pwReportAppendCoupleAndStimuliInfo
pwReportAppendGraphsAndReactions
pwReportAppendGraphsAndReactionsForSubnetworks
pwReportAppendLastStep
pwReportAppendObservables
pwReportClear
pwReportGUI
pwReportGenerate
pwReportNew
pwReportOnModelStructure
pwRepositoryBrowser
pwReset
pwResetOverwriteColor
pwRestoreOriginalData
pwRhsToSignature
pwRotate3DFigure
pwSBML2PW
pwSaveAllOpenFigures
pwSaveConfigToMFunction
pwSaveConfigToMatFile
pwSaveDataSetToFile
pwSaveDataSets
pwSaveDynamicalParameters
pwSaveFigures
pwSaveFiguresOfLastStep
pwSaveFiguresToHTML
pwSaveFitsToFile
pwSaveFrames
pwSaveFramesToAnimatedGif
pwSaveFramesToAvi
pwSaveInstructions
pwSaveModel
pwSaveModelKeepingCustomStructure
pwSaveOriginalDataFile
pwSaveOriginalModel
pwSaveParametersIntoModelFile
pwSavePlottingData
pwSaveRepository
pwSaveSelectedModelsWithFittedParValues
pwSaveStartValues
pwSaveState
pwScale
pwScaleAndMergeDataSets
pwScatterPlots
pwSearch
pwSearchInFolder
pwSelect
pwSelectDataFile
pwSelectModelFile
pwSensitivityAddPair
pwSensitivityAnalysis1D
pwSensitivityAnalysis2D
pwSensitivityAnalysis3D
pwSensitivityAnalysisDetailed
pwSensitivityAnalysisDetailedGUI
pwSetConfig
pwSetCurrentDataSet
pwSetCurrentDrivingFunction
pwSetErrorLevel
pwSetFitLimitsAroundCurrentValues
pwSetFitLimitsAroundTrueValues
pwSetFitParameterValuesByID
pwSetFitParsAndIntegrate
pwSetFitSettings
pwSetFitsOfAnalysis
pwSetFittedK
pwSetFittedS
pwSetFittedX
pwSetFixedParameters
pwSetIntegrationOptions
pwSetIntegrationStartTime
pwSetIntegrator
pwSetLogFitting
pwSetModelPlottingConfig
pwSetModelSpeciesVisibility
pwSetNFine
pwSetOptimizationUserFunction
pwSetOptimizationWeights
pwSetOptimizer
pwSetParameterValuesByID
pwSetParsForFitToDefaultValues
pwSetPlotStartTime
pwSetPlottingState
pwSetPlottingUserFunction
pwSetQRNGIndex
pwSetReferencesFile
pwSetResetValues
pwSetStimulusDependentView
pwSetStimulusField
pwSetTimeTransformation
pwSetUsedDataSet
pwSetX
pwSetY
pwShortcut
pwShowChisqLandscape
pwShowChisqLandscape3D
pwShowDataFromLibrary
pwShowFigure
pwShowFigures
pwShowFitting
pwShowGraph
pwShowGraphAsPNG
pwShowGraphForSubnetwork
pwShowHelp
pwShowLastError
pwShowModelsFromLibrary
pwShowODE
pwShowShortcuts
pwSim
pwSimpleToValidRegExp
pwSimulateNewRealization
pwSlide
pwSortFits
pwSplitStimuli
pwStochasticSimulation
pwSubtractAllY
pwSubtractK
pwSubtractR
pwSubtractU
pwSubtractX
pwSubtractY
pwSubtractZ
pwThresholdCrossing
pwTouch
pwTrajectoriesOfManyInputSettings
pwTrajectoriesOfManyParameterSettings
pwTutorial_ODE_based_models
pwTutorial_Rule_based_modeling
pwTutorial_Using_the_Parallel_Computing_Toolbox
pwUndo
pwUnselect
pwUpdateModelLibrary
pwUpdateRepository
pwUseCurrentParametersAsResetParameters
pwUseDataSetSettingsForSim
pwUseFitOfLastFitSequence
pwUserFunctionFitSum
pwUserFunctionPlotSum
pwValuesAtTimePoint
pwVersion
pws