Reference

All functions

addAdditionalCovariate()

[Monolix - PKanalix] Add an additional covariate

addCategoricalTransformedCovariate()

[Monolix] Add transformed categorical covariate

addContinuousTransformedCovariate()

[Monolix] Add transformed continuous covariate

addCustomNCAParametersFromPreferences()

[PKanalix] Add custom parameters from the preferences to the project

addGroup()

[Simulx] Add simulation group

addIndividualBlock()

[Simulx] Add an INDIVIDUAL block to a structural model

addMixture()

[Monolix] Add latent covariate to the model for a finite mixture model

applyFilter()

[Monolix - PKanalix] Apply filter

computeBins()

Compute bins

computeChartsData()

[Monolix - PKanalix - Simulx] Compute the charts data

computePredictions()

[Monolix] Compute predictions from the structural model

createCustomNCAParameter()

[PKanalix] Create a new NCA parameter as a formula of existing parameters

createFilter()

[Monolix - PKanalix] Create filter

createNCARatio()

[PKanalix] Create a ratio of NCA parameters across occasions.

defineCovariateElement()

[Simulx] Define covariate element

defineEndpoint()

[Simulx] Define endpoint element

defineIndividualElement()

[Simulx] Define individual parameters element

defineOccasionElement()

[Simulx] Define occasion element

defineOutcome()

[Simulx] Define outcome element

defineOutputElement()

[Simulx] Define output element

definePopulationElement()

[Simulx] Define population element

defineRegressorElement()

[Simulx] Define regressor element

defineTreatmentElement()

[Simulx] Define treatment element

deleteAdditionalCovariate()

[Monolix - PKanalix] Delete additional covariate

deleteCustomNCAParameter()

[PKanalix] Delete a custom NCA parameter

deleteElement()

[Simulx] Delete element

deleteEndpoint()

[Simulx] Delete an endpoint

deleteFilter()

[Monolix - PKanalix] Delete filter

deleteNCARatio()

[PKanalix] Delete an NCA ratio.

deleteOccasionElement()

[Simulx] Delete occasion element

deleteOutcome()

[Simulx] Delete an outcome

editFilter()

[Monolix - PKanalix] Edit filter

exportChartDataSet()

[Monolix] Export chart dataset

exportProject()

[Monolix - PKanalix - Simulx] Export current project to Monolix, PKanalix or Simulx

exportSimulatedData()

[Simulx] Export simulated data

formatData()

[Monolix - PKanalix] Adapt and export a data file as a MonolixSuite formatted data set.

generateReport()

[Monolix - PKanalix] Generate report

getAddLines()

[Simulx] Get lines added to the model.

getAssessmentResults()

[Monolix] Get the results of the convergence assessment

getAssessmentSettings()

[Monolix] Get convergence assessment settings

getAvailableData()

[Monolix - PKanalix] Get data sets descriptions

getBioequivalenceResults()

[PKanalix] Get Bioequivalence results

getBioequivalenceSettings()

[PKanalix] Get the settings associated to the bioequivalence estimation.

getBootstrapResults()

[Monolix] Get the results of boostrap

getBootstrapSettings()

[Monolix] Get bootstrap settings

getCACost()

[Pkanalix] Get the value of minimized cost in CA

getCAData()

[PKanalix] Get data used for CA computation.

getCAIndividualParameters()

[PKanalix] Get CA individual parameters

getCAInitialValues()

[PKanalix] Get the initial values of individual parameters for the compartmental analysis

getCAParametersByAutoInit()

[PKanalix] Automatically estimate initial parameters values

getCAParameterStatistics()

[PKanalix] Get CA parameter statistics

getCAResultsStratification()

[PKanalix] Get CA results stratification

getCASettings()

[PKanalix] Get the settings associated to the compartmental analysis

getChartsData()

[Monolix - PKanalix] [OBSOLETE] Compute Charts data with custom stratification options and

getConditionalDistributionSamplingSettings()

[Monolix] Get conditional distribution sampling settings

getConditionalModeEstimationSettings()

[Monolix] Get conditional mode estimation settings

getConsoleMode()

[Monolix - PKanalix - Simulx] Get console mode

getContinuousObservationModel()

[Monolix] Get continuous observation statistical model information

getCorrelationOfEstimates()

[Monolix] Get the inverse of the Fisher Matrix

getCovariateElements()

[Simulx] Get covariate elements

getCovariateInformation()

[Monolix - PKanalix] Get covariates information

getCustomNCAParameters()

[PKanalix] Retrieve the list of the custom NCA parameters in the project and/or the preferences

getData()

[Monolix - PKanalix] Get project data

getDataSettings()

[PKanalix] Get the data settings associated to the non compartmental analysis

getDemoPath()

[Monolix - PKanalix - Simulx] Get Lixoft demos path

getEndpoints()

[Simulx] Get endpoint elements

getEndpointsResults()

[Simulx] Get endpoints results

getEstimatedConfidenceIntervals()

[Monolix] Get confidence interval of population parameters

getEstimatedIndividualParameters()

[Monolix] Get last estimated individual parameter values

getEstimatedLogLikelihood()

[Monolix] Get Log-Likelihood values

getEstimatedPopulationParameters()

[Monolix] Get last estimated population parameter value

getEstimatedRandomEffects()

[Monolix] Get the estimated random effects

getEstimatedStandardErrors()

[Monolix] Get standard errors of population parameters

getEtaShrinkage()

[Monolix] Get individual parameter shrinkage values

getFixedEffectsByAutoInit()

[Monolix] Automatically estimate initial parameter values

getFormatting()

[Monolix - PKanalix] Get data formatting from a loaded project

getGeneralSettings()

[Monolix] Get project general settings for chains

getGroupComparisonSettings()

[Simulx] Get group comparison settings

getGroupRemaining()

[Simulx] Get remaining parameters for a simulation group

getGroups()

[Simulx] Get simulation groups

getIndividualElements()

[Simulx] Get individual parameters elements

getIndividualParameterModel()

[Monolix] Get individual parameter model

getInterpretedData()

[Monolix - PKanalix] Get interpreted project data

getLastRunStatus()

[Monolix - PKanalix] Get last run status

getLaunchedTasks()

[Monolix] Get tasks with results

getLibraryModelContent()

[Monolix - PKanalix - Simulx] Get a library model's content.

getLibraryModelName()

[Monolix - PKanalix - Simulx] Get the name of a library model given a list of library filters.

getLixoftConnectorsState()

Get lixoftConnectors API current state

getLixoftEnvInfo()

Get information about LixoftEnvironment object

getLogLikelihoodEstimationSettings()

[Monolix] Get Log-likelihood algorithm settings

getMapping()

[Monolix - PKanalix] Get mapping

getMCMCSettings()

[Monolix] Get settings for transition kernels of the MCMC algorithm

getModelBuildingResults()

[Monolix] Get the results of the model building

getModelBuildingSettings()

[Monolix] Get model building settings

getNbReplicates()

[Simulx] Get number of replicates

getNCAConcentrations()

Concentrations [PKANALIX] Get table of concentrations

getNCAConcentrationsSettings()

Concentration settings [PKANALIX] Get table of concentrations settings

getNCAData()

[PKanalix] Get data used for NCA estimation

getNCAIndividualParameters()

[PKanalix] Get NCA individual parameters

getNCAIndividualRatios()

[PKanalix] Get estimated values of NCA ratios

getNCAParameterStatistics()

[PKanalix] Get NCA parameter statistics

getNCARatios()

[PKanalix] Get defined NCA ratios.

getNCARatioStatistics()

[PKanalix] Get summary statistics for NCA ratios

getNCAResultsStratification()

[PKanalix] Get NCA results stratification

getNCASettings()

[PKanalix] Get the settings associated to the non compartmental analysis

getObservationInformation()

[Monolix - PKanalix] Get observations information

getOccasionElements()

[Simulx] Get occasion elements

getOutcomes()

[Simulx] Get outcome elements

getOutputElements()

[Simulx] Get output elements

getPlotPreferences()

[Monolix - PKanalix] Define Preferences to customize plots

getPointsIncludedForLambdaZ()

[PKanalix] Get points included in lambda_Z computation

getPopulationElements()

[Simulx] Get population parameters elements

getPopulationParameterEstimationSettings()

[Monolix] Get population parameter estimation settings

getPopulationParameterInformation()

[Monolix] Get population parameters information

getPreferences()

[Monolix - PKanalix - Simulx] Get project preferences

getProjectSettings()

[Monolix - PKanalix - Simulx] Get project settings

getRegressorElements()

[Simulx] Get regressor elements

getRegressorsSettings()

[Simulx] Get regressors settings

getResultsStratificationGroups()

[Monolix - PKanalix - Simulx] Get results stratification groups

getSAEMiterations()

[Monolix] Get SAEM algorithm iterations

getSameIndividualsAmongGroups()

[Simulx] Get same individuals among groups

getSamplingMethod()

[Simulx] Get sampling method

getScenario()

[Monolix - PKanalix - Simulx] Get current scenario

getSharedIds()

[Simulx] Get element types sharing individuals

getSimulatedIndividualParameters()

[Monolix] Get simulated individual parameters

getSimulatedRandomEffects()

[Monolix] Get simulated random effects

getSimulationResults()

[Simulx] Get simulation results

getStandardErrorEstimationSettings()

[Monolix] Get standard error estimation settings

getStructuralModel()

[Monolix - PKanalix - Simulx] Get structural model file

getTests()

[Monolix] Get statistical tests results

getTreatmentElements()

[Simulx] Get treatment elements

getTreatmentsInformation()

[Monolix - PKanalix] Get treatments information

getVariabilityLevels()

[Monolix] Get variability levels

importProject()

[Monolix - PKanalix - Simulx] Import project from Datxplore, Monolix or PKanalix

initializeLixoftConnectors()

[Monolix - PKanalix - Simulx] Initialize lixoftConnectors API

isProjectLoaded()

[Monolix - PKanalix - Simulx] Get current project load status.

lixoftDisplay()

Display Lixoft API Structures

loadProject()

[Monolix - PKanalix - Simulx] Load project from file

newProject()

[Monolix - PKanalix - Simulx] Create a new project

plotBEConfidenceIntervals()

[PKanalix] BE Confidence Intervals plot

plotBESequenceByPeriod()

[PKanalix] Plot the bioequivalence sequence-by-period

plotBESubjectByFormulation()

[PKanalix] Plot subject-by-formulation

plotBivariateDataViewer()

[Monolix - PKanalix] Generate Bivariate observations plots

plotBlqPredictiveCheck()

[Monolix] Plot BLQ predictive checks

plotCAIndividualFits()

[PKanalix] Generate CA Fit plots

plotCAObservationsVsPredictions()

[PKanalix] Plot observations vs the CA predictions.

plotCAParametersCorrelation()

[PKanalix] Correlation between CA individual parameters.

plotCAParametersDistribution()

[PKanalix] Distribution of the individual CA parameters

plotCAParametersVsCovariates()

[PKanalix] Individual CA parameter vs covariate plot

plotCovariates()

[Monolix - PKanalix] Generate Covariate plots

plotImportanceSampling()

[Monolix] Plot Importance sampling convergence.

plotIndividualFits()

[Monolix] Plot Monolix Individual Fits

plotMCMC()

[Monolix] Plot MCMC convergence

plotNCAData()

[PKanalix] Generate NCA data plots

plotNCAIndividualFits()

[PKanalix] Generate NCA individual fits (lambda_z regression)

plotNCAParametersCorrelation()

[PKanalix] Correlation between NCA individual parameters.

plotNCAParametersDistribution()

[PKanalix] Distribution of the individual NCA parameters

plotNCAParametersVsCovariates()

[PKanalix] Individual NCA parameter vs covariate plot.

plotNpc()

[Monolix] Plot Numerical predictive checks

plotObservationsVsPredictions()

[Monolix] Plot Observation VS Prediction

plotObservedData()

[Monolix - PKanalix] Generate Observed data plot

plotParametersDistribution()

[Monolix] Distribution of the individual parameters computed by Monolix

plotParametersVsCovariates()

[Monolix] Individual monolix parameter vs covariate plot.

plotPredictionDistribution()

[Monolix] Plot distribution of the predictions

plotRandomEffectsCorrelation()

[Monolix] Correlations between random effect.

plotResidualsDistribution()

[Monolix] Generate Distribution of the residuals

plotResidualsScatterPlot()

[Monolix] Generate Scatter plots of the residuals

plotSaem()

[Monolix] Plot SAEM convergence

plotStandardizedRandomEffectsDistribution()

[Monolix] Distribution of the standardized random effects.

plotVpc()

[Monolix] Plot Visual predictive checks

printOutcomesEndpoints()

[Simulx] Print outcomes and endpoints

printSimulationSetup()

[Simulx] Print simulation setup

removeCovariate()

[Monolix] Remove covariate

removeFilter()

[Monolix - PKanalix] Remove filter

removeGroup()

[Simulx] Remove simulation group

removeGroupElement()

[Simulx] Remove element from simulation group

renameAdditionalCovariate()

[Monolix - PKanalix] Rename additional covariate

renameFilter()

[Monolix - PKanalix] Rename filter

renameGroup()

[Simulx] Rename simulation group

resetPlotPreferences()

Reset plot preferences to go back to default preferences

runAssessment()

[Monolix] Run convergence assessment

runBioequivalenceEstimation()

[PKanalix] Estimate the bioequivalence.

runBootstrap()

[Monolix] Run boostrap

runCAEstimation()

[PKanalix] Estimate the individual parameters using compartmental analysis.

runConditionalDistributionSampling()

[Monolix] Sampling from the conditional distribution

runConditionalModeEstimation()

[Monolix] Estimation of the conditional modes (EBEs)

runEndpoints()

[Simulx] Run endpoints task

runEstimation()

[PKanalix] Run both non compartmental and compartmental analysis.

runLogLikelihoodEstimation()

[Monolix] Log-likelihood estimation

runModelBuilding()

[Monolix] Run model building

runNCAEstimation()

[PKanalix] Estimate the individual parameters using non compartmental analysis.

runPopulationParameterEstimation()

[Monolix] Population parameter estimation

runScenario()

[Monolix - PKanalix - Simulx] Run scenario

runSimulation()

[Simulx] Run simulation

runStandardErrorEstimation()

[Monolix] Standard error estimation

saveProject()

[Monolix - PKanalix - Simulx] Save current project

selectData()

[Monolix - PKanalix] Select data set

setAddLines()

[Simulx] Add lines to the model.

setAutocorrelation()

[Monolix] Set auto-correlation

setBioequivalenceSettings()

[PKanalix] Set the value of one or several of the settings associated to the bioequivalence estimation

setCAInitialValues()

[PKanalix] Set the initial values of parameters for the compartmental analysis

setCAResultsStratification()

[PKanalix] Set CA results stratification

setCASettings()

[PKanalix] Set the settings associated to the compartmental analysis

setConditionalDistributionSamplingSettings()

[Monolix] Set conditional distribution sampling settings

setConditionalModeEstimationSettings()

[Monolix] Set conditional mode estimation settings

setConsoleMode()

[Monolix - PKanalix - Simulx] Set console mode

setCorrelationBlocks()

[Monolix] Set correlation block structure

setCovariateModel()

[Monolix] Set covariate model

setData()

[Monolix - PKanalix] Set project data

setDataSettings()

[PKanalix] Set the value of one or several of the data settings associated to the non compartmental analysis

setErrorModel()

[Monolix] Set error model

setGeneralSettings()

[Monolix] Set project general settings for chains

setGroupComparisonSettings()

[Simulx] Set group comparison settings

setGroupElement()

[Simulx] Set elements to a simulation group

setGroupRemaining()

[Simulx] Set remaining parameters for a simulation group

setGroupSize()

[Simulx] Set simulation group size

setIndividualLogitLimits()

[Monolix] Set individual parameter distribution limits

setIndividualParameterDistribution()

[Monolix] Set individual parameter distribution

setIndividualParameterModel()

[Monolix] Set individual parameter model

setIndividualParameterVariability()

[Monolix] Individual variability management

setInitialEstimatesToLastEstimates()

[Monolix] Initialize population parameters with the last estimated ones

setLogLikelihoodEstimationSettings()

[Monolix] Set log-likelihood estimation settings

setMapping()

[Monolix - PKanalix] Set mapping

setMCMCSettings()

[Monolix] Set settings for transition kernels of the MCMC algorithm

setNbReplicates()

[Simulx] Set number of replicates

setNCAConcentrationsSettings()

Concentration settings [PKANALIX] Set table of concentrations settings

setNCAResultsStratification()

[PKanalix] Set NCA results stratification

setNCASettings()

[PKanalix] Set the value of one or several of the settings associated to the non compartmental analysis

setObservationDistribution()

[Monolix] Set observation model distribution

setObservationLimits()

[Monolix] Set observation model distribution limits for logitNormal observations

setPlotPreferences()

Set preferences to customize plots When preferences are Set, the updated preferences will used in all the plots

setPopulationParameterEstimationSettings()

[Monolix] Set population parameter estimation settings

setPopulationParameterInformation()

[Monolix] Set population parameters initialization and estimation method

setPreferences()

[Monolix - PKanalix - Simulx] Set preferences

setProjectSettings()

[Monolix - PKanalix - Simulx] Set project settings

setRegressorsSettings()

[Simulx] Edit regressors settings

setResultsStratificationGroups()

[Monolix - PKanalix - Simulx] Set results stratification groups

setSameIndividualsAmongGroups()

[Simulx] Set same individuals among groups

setSamplingMethod()

[Simulx] Set sampling method

setScenario()

[Monolix - PKanalix - Simulx] Set scenario

setSharedIds()

[Simulx] Set element types sharing individuals

setStandardErrorEstimationSettings()

[Monolix] Set standard error estimation settings

setStructuralModel()

[Monolix - PKanalix] Set structural model file

shareProject()

[Monolix - PKanalix - Simulx] Share project.