Man pages for Open-Systems-Pharmacology/OSPSuite.ReportingEngine
R package to create reports for the Open Systems Pharmacology models

activateWorkflowTasksactivateWorkflowTasks
addFigureChunkaddFigureChunk
addLineBreakToCaptionaddLineBreakToCaption
addLLOQLegendaddLLOQLegend
addMarkdownTocaddMarkdownToc
addNewPkParameteraddNewPkParameter
addOutputToComparisonTimeProfileaddOutputToComparisonTimeProfile
addSectionNumbersToMarkdownaddSectionNumbersToMarkdown
addStudyParametersaddStudyParameters
addTableAndFigureNumbersToMarkdownaddTableAndFigureNumbersToMarkdown
addTableChunkaddTableChunk
addTextChunkaddTextChunk
addUserDefinedTaskaddUserDefinedTask
addXParametersForDemographyPlotaddXParametersForDemographyPlot
addXParametersForPKParametersPlotaddXParametersForPKParametersPlot
addYParametersForDemographyPlotaddYParametersForDemographyPlot
addYParametersForPKParametersPlotaddYParametersForPKParametersPlot
adjustTitlePageadjustTitlePage
AggregationConfigurationAggregationConfiguration
AllAvailableTasksAllAvailableTasks
analyzeCoreSensitivityanalyzeCoreSensitivity
analyzeSensitivityanalyzeSensitivity
anchoranchor
ApplicationRangesApplicationRanges
asisCodeIdsasisCodeIds
asTimeAfterDoseasTimeAfterDose
autoAxesLimitsautoAxesLimits
autoAxesTicksFromLimitsautoAxesTicksFromLimits
buildQualificationDDIDataframebuildQualificationDDIDataframe
calculateArithmeticErrorRangecalculateArithmeticErrorRange
calculateGeometricErrorRangecalculateGeometricErrorRange
calculateGMFEcalculateGMFE
calculatePKAnalysesRatiocalculatePKAnalysesRatio
calculatePKParameterscalculatePKParameters
CalculatePKParametersTaskCalculatePKParametersTask
checkHasRunOnAllCorescheckHasRunOnAllCores
checkIsSamePopulationcheckIsSamePopulation
checkTaskInputsExistcheckTaskInputsExist
ConfigurationFontsFieldsConfigurationFontsFields
ConfigurationLinetypesConfigurationLinetypes
ConfigurationPlanConfigurationPlan
ConfigurationPlotsConfigurationPlots
ConfigurationPlotSettingsConfigurationPlotSettings
ConfigurationScalesConfigurationScales
ConfigurationShapesConfigurationShapes
copyReportcopyReport
createSectionOutputcreateSectionOutput
createWorkflowFromExcelInputcreateWorkflowFromExcelInput
DataSelectionKeysDataSelectionKeys
DataSourceDataSource
dataSourceNamesFromIdentifierdataSourceNamesFromIdentifier
DataSourcesCodeIdentifiersDataSourceCodeIdentifiers
ddiPKRatioColumnNameColumn names to check in observed data based on Configuration...
ddiPlotTypeSpecificationsSpecifications of each DDI plot type
ddiSubplotTypesAllowed DDI subplot types
defaultMassBalanceGroupingsdefaultMassBalanceGrouping
DemographyDefaultParametersDemographyDefaultParameters
displayConfigurationPlanPlotInfodisplayConfigurationPlanPlotInfo
displayDebugLogsdisplayDebugLogs
evalDataFilterevalDataFilter
ExcelMessagingExcelMessaging
extractNameAndUnitextractNameAndUnit
formatPKParametersTableformatPKParametersTable
generateDDIPlotPKParameterNamegenerateDDIPlotPKParameterName
generateDDIQualificationDDIPlotgenerateDDIQualificationDDIPlot
generateResultFileNamesgenerateResultFileNames
geomeangeomean
geomeanDividedBySDgeomeanDividedBySD
geomeanMultipliedBySDgeomeanMultipliedBySD
getAggregateFromStatgetAggregateFromStat
getAllowedCoresgetAllowedCores
getAllowedCoresLinuxKubernetesgetAllowedCoresLinuxKubernetes
getAnchorNamegetAnchorName
getApplicationResultsgetApplicationResults
getAxesPropertiesgetAxesProperties
getAxesSettingsgetAxesSettings
getBoxWhiskerPlotConfigurationgetBoxWhiskerPlotConfiguration
getCaptionFromStatgetCaptionFromStat
getColorFromOutputGroupgetColorFromOutputGroup
getColorGroupForPKParameterPlotgetColorGroupForPKParameterPlot
getComparisonHistogramResultsgetComparisonHistogramResults
getComparisonTimeProfileOutputsDataframegetComparisonTimeProfileOutputsDataframe
getCompoundNameFromPathgetCompoundNameFromPath
getDataSourcesContentgetDataSourcesContent
getDDIOutputsDataframegetDDIOutputsDataframe
getDDIRatioListgetDDIRatioList
getDDISectiongetDDISection
getDDITablegetDDITable
getDefaultDemographyXParametersgetDefaultDemographyXParameters
getDefaultFileNamegetDefaultFileName
getDefaultFolderNamegetDefaultFolderName
getDefaultMCRandomSeedgetDefaultMCRandomSeed
getDefaultMCRepetitionsgetDefaultMCRepetitions
getDefaultPkParametersXParametersgetDefaultPKParametersXParameters
getDefaultPropertiesFromThemegetDefaultPropertyFromTheme
getDefaultREThemegetDefaultRETheme
getDefaultTimeProfileAxesSettingsgetDefaultTimeProfileAxesSettings
getDefaultTotalSensitivityThresholdgetDefaultTotalSensitivityThreshold
getDemographyAcrossPopulationsgetDemographyAcrossPopulations
getDemographyAggregatedDatagetDemographyAggregatedData
getDictionaryVariablegetDictionaryVariable
getElapsedTimegetElapsedTime
getFigurePathsFromReportgetFigurePathsFromReport
getFileLocationFromTypegetFileLocationFromType
getFirstLineElementgetFirstLineElement
getGOFAxesUnitsgetGOFAxesUnits
getGOFDataForMappinggetGOFDataForMapping
getGOFOutputsDataframegetGOFOutputsDataframe
getGOFPlotConfigurationgetGOFPlotConfiguration
getGuestDeltaFromConfigurationPlangetGuestDeltaFromConfigurationPlan
getHeaderNamesgetHeaderNames
getHistogramResultsgetHistogramResults
getIdentifierInfogetIdentifierInfo
getIndividualSAResultsFileNamegetIndividualSAResultsFileName
getIntroFromReportTitlegetIntroFromReportTitle
getLegendAesOverridegetLegendAesOverride
getLineBreakWidthgetLineBreakWidth
getMassBalanceDatagetMassBalanceData
getMassBalanceDataMappinggetMassBalanceDataMapping
getMassBalancePlotConfigurationgetMassBalancePlotConfiguration
getMeanPKAnalysesFromOutputgetMeanPKAnalysesFromOutput
getMeanSensitivityAnalysisResultsFileNamesgetMeanSensitivityAnalysisResultsFileNames
getMechanismNamegetMechanismName
getMetaDataFramegetMetaDataFrame
getMolWeightForCompoundgetMolWeightForCompound
getMonteCarloMediansgetMonteCarloMedians
getObjectNameAsStringgetObjectNameAsString
getObjectNamesInGlobalEnvgetObjectNamesInGlobalEnv
getObservedCurvePropertiesgetObservedCurveProperties
getObservedDataFromConfigurationPlangetObservedDataFromConfigurationPlan
getObservedDataFromOutputgetObservedDataFromOutput
getObservedDataIdFromPathgetObservedDataIdFromPath
getObservedDemographyAcrossPopulationsgetObservedDemographyAcrossPopulations
getObservedDemographyFromSimulationSetgetObservedDemographyFromSimulationSet
getObservedErrorValuesgetObservedErrorValues
getOutputGroupsgetOutputGroups
getOutputPathsInSimulationSetgetOutputPathsInSimulationSet
getOutputsContentgetOutputsContent
getOutputsFromConfigurationPlangetOutputsFromConfigurationPlan
getOutputsFromGOFMergedPlotsConfigurationgetOutputsFromGOFMergedPlotsConfiguration
getOutputsFromTimeProfileConfigurationgetOutputsFromTimeProfileConfiguration
getPKAnalysisResultsFileNamesgetPKAnalysisResultsFileNames
getPkOutputIndexDfgetPkOutputIndexDf
getPKParameterGroupsInOutputgetPKParameterGroupsInOutput
getPKParameterMeasuregetPKParameterMeasure
getPKParameterRatioTablegetPKParameterRatioTable
getPKParametersAcrossPopulationsgetPKParametersAcrossPopulations
getPKParametersContentgetPKParametersContent
getPKParametersInfoContentgetPKParametersInfoContent
getPKParametersInOutputgetPKParametersInOutput
getPKParametersInSimulationSetgetPKParametersInSimulationSet
getPKRatioForMappinggetPKRatioForMapping
getPKRatioOutputsDataframegetPKRatioOutputsDataframe
getPKRatioSummaryForDifferentPopulationsgetPKRatioSummaryForDifferentPopulations
getPKRatioSummaryForSamePopulationgetPKRatioSummaryForSamePopulation
getPKRatioSummaryFromAnalyticalSolutiongetPKRatioSummaryFromAnalyticalSolution
getPKRatioSummaryFromMCSamplinggetPKRatioSummaryFromMCSampling
getPKRatioSummaryFromSettingsgetPKRatioSummaryFromSettings
getPKRatioSummaryStatisticsgetPKRatioSummaryStatistics
getPKResultsDataFramegetPKResultsDataFrame
getPlotConfigurationFromPlangetPlotConfigurationFromPlan
getPlotSettingsgetPlotSettings
getPopSensDfForPkAndOutputgetPopSensDfForPkAndOutput
getPopulationPKAnalysesFromOutputgetPopulationPKAnalysesFromOutput
getPopulationPKDatagetPopulationPKData
getPopulationPKMetaDatagetPopulationPKMetaData
getPopulationResultsFromOutputgetPopulationResultsFromOutput
getPopulationSensitivityAnalysisResultsFileNamesgetPopulationSensitivityAnalysisResultsFileNames
getQualificationDDIPlotDatagetQualificationDDIPlotData
getQualificationDDIRatioMeasuregetQualificationDDIRatioMeasure
getQualificationGOFDatagetQualificationGOFData
getQualificationGOFGMFEgetQualificationGOFGMFE
getQualificationGOFPlotgetQualificationGOFPlot
getQualificationPKRatioDatagetQualificationPKRatioData
getQualificationPKRatioGMFEgetQualificationPKRatioGMFE
getQualificationPKRatioMeasuregetQualificationPKRatioMeasure
getQualificationPKRatioPlotgetQualificationPKRatioPlot
getQualificationPKRatioTablegetQualificationPKRatioTable
getQuantileIndividualIdsgetQuantileIndividualIds
getReaderFunctiongetReaderFunction
getReferencePopulationNamegetReferencePopulationName
getReportingEngineInfogetReportingEngineInfo
getRESettingsgetRESettings
getResidualsgetResiduals
getResidualsPlotResultsgetResidualsPlotResults
getSAFileIndexgetSAFileIndex
getScriptDocumentationgetScriptDocumentation
getSelectedDatagetSelectedData
getSelectedRowsgetSelectedRows
getSensitivityVariableParameterPathsgetSensitivityVariableParameterPaths
getSimulatedCurvePropertiesgetSimulatedCurveProperties
getSimulatedResultsFromOutputgetSimulatedResultsFromOutput
getSimulationDescriptorgetSimulationDescriptor
getSimulationParameterDisplayPathsgetSimulationParameterDisplayPaths
getSimulationResultFileNamesgetSimulationResultFileNames
getSimulationSetContentgetSimulationSetContent
getSimulationSetTypegetSimulationSetType
getSimulationTimeRangesgetSimulationTimeRanges
getSmartZoomLimitsgetSmartZoomLimits
getSplitPositionsgetSplitPositions
getStatisticsFromTypegetStatisticsFromType
getTaskInputsgetTaskInputs
getTimeProfileObservedDataFromResultsgetTimeProfileObservedDataFromResults
getTimeProfileOutputsDataframegetTimeProfileOutputsDataframe
getTimeProfilePlotConfigurationgetTimeProfilePlotConfiguration
getTimeProfilePlotResultsgetTimeProfilePlotResults
getTimeStampgetTimeStamp
getTimeTicksFromUnitgetTimeTicksFromUnit
getTitleInfogetTitleInfo
getUserDefPKParametersContentgetUserDefPKParametersContent
getWorkflowContentgetWorkflowContent
getWorkflowParameterDisplayPathsgetWorkflowParameterDisplayPaths
getWorkflowReferencePopulationNamegetWorkflowReferencePopulationName
getXParametersForDemographyPlotgetXParametersForDemographyPlot
getXParametersForPKParametersPlotgetXParametersForPKParametersPlot
getYParametersForDemographyPlotgetYParametersForDemographyPlot
getYParametersForPKParametersPlotgetYParametersForPKParametersPlot
GofPlotTaskGofPlotTask
GofTaskSettingsGofTaskSettings
hasAnchorhasAnchor
highlighthighlight
inactivateWorkflowTasksinactivateWorkflowTasks
individualSensitivityAnalysisindividualSensitivityAnalysis
introToYamlHeaderintroToYamlHeader
isLoadedPackageisLoadedPackage
isLoadedPopulationisLoadedPopulation
isLoadedSimulationisLoadedSimulation
isObservedDataisObservedData
isValidatedSystemisValidatedSystem
lastPathElementlastPathElement
loadCalculatePKParametersTaskloadCalculatePKParametersTask
loadCalculateSensitivityTaskloadCalculateSensitivityTask
loadConfigurationPlanloadConfigurationPlan
loadGOFMergedTaskloadGOFMergedTask
loadObservedDataFromSimulationSetloadObservedDataFromSimulationSet
loadPackageOnCoresloadPackageOnCores
loadPKAnalysesFromCSVloadPKAnalysesFromCSV
loadPKAnalysesFromStructureSetloadPKAnalysesFromStructureSet
loadPlotAbsorptionTaskloadPlotAbsorptionTask
loadPlotDDIRatioTaskloadPlotDDIRatioTask
loadPlotDemographyTaskloadPlotDemographyTask
loadPlotMassBalanceTaskloadPlotMassBalanceTask
loadPlotPKParametersTaskloadPlotPKParametersTask
loadPlotPKRatioTaskloadPlotPKRatioTask
loadPlotSensitivityTaskloadPlotSensitivityTask
loadPlotTimeProfilesAndResidualsTaskloadPlotTimeProfilesAndResidualsTask
loadPopulationOnCoresloadPopulationOnCores
loadQualificationComparisonTimeProfileTaskloadQualificationComparisonTimeProfileTask
loadQualificationTimeProfilesTaskloadPlotTimeProfilesTask
loadQualificationWorkflowloadQualificationWorkflow
loadRESettingsloadRESettings
loadSimulateTaskloadSimulateTask
loadSimulationOnCoresloadSimulationOnCores
loadSimulationWithUpdatedPathsloadSimulationWithUpdatedPaths
loadStudyDesignloadStudyDesign
loadWorkflowPopulationloadWorkflowPopulation
logCatchlogCatch
logDebuglogDebug
logErrorlogError
logErrorThenStoplogErrorThenStop
LoggingLogging
logicalCodeIdslogicalCodeIds
logInfologInfo
LogTypesLogTypes
lookupPKParameterDisplayNamelookupPKParameterDisplayName
mapStudyDesignSourcesmapStudyDesignSources
mapStudyDesignTargetsmapStudyDesignTargets
massMoleConversionmassMoleConversion
mcSamplingmcSampling
MeanModelWorkflowMeanModelWorkflow
measureValuesBetweenmeasureValuesBetween
mergeMarkdownFilesmergeMarkdownFiles
newOutputColornewOutputColor
OptionalSettingsOptionalSettings
OutputOutput
outputNamesFromIdentifieroutputNamesFromIdentifier
OutputsCodeIdentifiersOutputsCodeIdentifiers
parseObservationsDataFrameparseObservationsDataFrame
parseVariableFromObjectparseVariableFromObject
parseVariableToObjectparseVariableToObject
pkDictionaryQualificationOSPDictionary for 'ospsuite' PK parameters defined by...
PkParameterInfoPkParameterInfo
pkParameterTableAsRelativeChangepkParameterTableAsRelativeChange
plotAbsorptionTimeProfileplotAbsorptionTimeProfile
plotDemographyHistogramplotDemographyHistogram
plotDemographyParametersplotDemographyParameters
plotDemographyRangeplotDemographyRange
plotMeanAbsorptionplotMeanAbsorption
plotMeanGoodnessOfFitplotMeanGoodnessOfFit
plotMeanMassBalanceplotMeanMassBalance
plotMeanPKParametersplotMeanPKParameters
plotMeanSensitivityplotMeanSensitivity
plotMeanTimeProfileplotMeanTimeProfile
plotMeanTimeProfileLogplotMeanTimeProfileLog
plotPopTimeProfileplotPopTimeProfile
plotPopTimeProfileLogplotPopTimeProfileLog
plotPopulationGoodnessOfFitplotPopulationGoodnessOfFit
plotPopulationPKParametersplotPopulationPKParameters
plotPopulationSensitivityplotPopulationSensitivity
plotQualificationComparisonTimeProfileplotQualificationComparisonTimeProfile
plotQualificationDDIsplotQualificationDDIs
plotQualificationGOFsplotQualificationGOFs
plotQualificationMeanTimeProfileplotQualificationMeanTimeProfile
plotQualificationPKRatioplotQualificationPKRatio
plotQualificationPopulationTimeProfileplotQualificationPopulationTimeProfile
plotQualificationTimeProfilesplotQualificationTimeProfiles
plotStatisticsFromPlanplotStatisticsFromPlan
PlotTaskPlotTask
PopulationPlotTaskPopulationPlotTask
PopulationSensitivityAnalysisTaskPopulationSensitivityAnalysisTask
PopulationSimulationSetPopulationSimulationSet
PopulationWorkflowPopulationWorkflow
PopulationWorkflowTypesPopulationWorkflowTypes
prettyCaptionprettyCaption
qualificationCatchqualificationCatch
QualificationTaskQualificationTask
QualificationVersionInfoQualificationVersionInfo
QualificationWorkflowQualificationWorkflow
ratioBoxplotratioBoxplot
rbindPKParametersTablesrbindPKParametersTables
readObservedDataFilereadObservedDataFile
reEnvreEnv
removeCommentsFromWorkflowContentremoveCommentsFromWorkflowContent
removeForbiddenLettersremoveForbiddenLetters
removeHighlightremoveHighlight
removeMissingValuesremoveMissingValues
removeNegativeValuesremoveNegativeValues
renderReportrenderReport
renderWordReportrenderWordReport
replaceInfWithNAreplaceInfWithNA
ReportingEngineInfoReportingEngineInfo
resetLogsresetLogs
resetReportresetReport
resetRESettingsToDefaultresetRESettingsToDefault
reSettingsNamesreSettingsNames
ResidualScalesResidualScales
runParallelPopulationSimulationrunParallelPopulationSimulation
runParallelSensitivityAnalysisrunParallelSensitivityAnalysis
runPopulationSensitivityAnalysisrunPopulationSensitivityAnalysis
runSensitivityrunSensitivity
saveFiguresaveFigure
saveLogssaveLogs
saveLogsToJsonsaveLogsToJson
saveRESettingssaveRESettings Save the current reporting engine global...
saveTaskResultssaveTaskResults
sectionsAsDataFramesectionsAsDataFrame
SensitivityAnalysisSettingsSensitivityAnalysisSettings
SensitivityAnalysisTaskSensitivityAnalysisTask
SensitivityPlotSettingsSensitivityPlotSettings
setDefaultAutoAxisLimitMarginsetDefaultAutoAxisLimitMargin
setDefaultBinssetDefaultBins
setDefaultErrorbarCapSizesetDefaultErrorbarCapSize
setDefaultMCRandomSeedsetDefaultMCRandomSeed
setDefaultMCRepetitionssetDefaultMCRepetitions
setDefaultNumericFormatsetDefaultNumericFormat
setDefaultPlotFormatsetDefaultPlotFormat
setDefaultStairstepsetDefaultStairstep
setDefaultThemesetDefaultTheme
setDefaultThemeFromJsonsetDefaultThemeFromJson
setDefaultTimeProfileStatisticssetDefaultTimeProfileStatistics
setLogFoldersetLogFolder
setPlotFormatsetPlotFormat
setQuadraticDimensionsetQuadraticDimension
setSimulationDescriptorsetSimulationDescriptor
setWorkflowParameterDisplayPathssetWorkflowParameterDisplayPaths
setWorkflowParameterDisplayPathsFromFilesetWorkflowParameterDisplayPathsFromFile
setXParametersForDemographyPlotsetXParametersForDemographyPlot
setXParametersForPKParametersPlotsetXParametersForPKParametersPlot
setYParametersForDemographyPlotsetYParametersForDemographyPlot
setYParametersForPKParametersPlotsetYParametersForPKParametersPlot
showLogMessagesshowLogMessages
simulateModelsimulateModel
simulateModelForPopulationsimulateModelForPopulation
simulateModelOnCoresimulateModelOnCore
simulateModelParallelsimulateModelParallel
simulateWorkflowModelssimulateWorkflowModels
SimulationCodeIdentifiersSimulationCodeIdentifiers
SimulationSetSimulationSet
SimulationSettingsSimulationSettings
SimulationStructureSimulationStructure
SimulationTaskSimulationTask
StandardExcelSheetNamesStandardExcelSheetNames
StandardPlotTasksStandardPlotTasks
StandardSimulationTasksStandardSimulationTasks
startQualificationRunnerstartQualificationRunner
StatisticsTypesStatisticsTypes
StudyDesignStudyDesign
StudyDesignTargetStudyDesignTarget
summaryStatisticsToDataFramesummaryStatisticsToDataFrame
TaskTask
TaskResultsTaskResults
TaskSettingsTaskSettings
tictic
tlfLinetypetlfLinetype
tlfScaletlfScale
tlfShapetlfShape
translateDataSelectiontranslateDataSelection
translateForWordtranslateForWord
trimFileNametrimFileName
updateArtifactNumbersupdateArtifactNumbers
updateAxesMarginupdateAxesMargin
updateFigureNumbersupdateFigureNumbers
updateIndividualParametersOnCoresupdateIndividualParametersOnCores
updatePlotAxesupdatePlotAxes
updatePlotConfigurationTimeTicksupdatePlotConfigurationTimeTicks
updatePlotDimensionsupdatePlotDimensions
updateQualificationTimeProfilePlotConfigurationupdateQualificationTimeProfilePlotConfiguration
updateSimulationIndividualParametersupdateSimulationIndividualParameters
updateTableNumbersupdateTableNumbers
updateTargetValuesupdateTargetValues
updateVpcPlotColorupdateVpcPlotColor
updateWatermarkDimensionsupdateWatermarkDimensions
UserDefPKParametersOptionalSettingsUserDefPKParametersOptionalSettings
validateDataSourceCheck the consistency between observed data and its...
validateHasRunOnAllCoresvalidateHasRunOnAllCores
validateNoDuplicatevalidateNoDuplicate
vpcParameterPlotvpcParameterPlot
WorkflowWorkflow
WorkflowCodeIdentifiersWorkflowCodeIdentifiers
WorkflowMandatoryVariablesWorkflowMandatoryVariables
Open-Systems-Pharmacology/OSPSuite.ReportingEngine documentation built on March 30, 2024, 4:17 p.m.