Man pages for PFIM
Population Fisher Information Matrix

addModel	Add a model to a library of models.
addModels	Add a models to a library of models.
Administration-class	Class "Administration"
AdministrationConstraints-class	Class "AdministrationConstraints"
Arm-class	Class "Arm"
BayesianFim-class	Class "BayesianFim"
checkSamplingTimeConstraintsForContinuousOptimization	Check for the samplingTime constraints for continuous...
checkValiditySamplingConstraint	checkValiditySamplingConstraint
Combined1-class	Class "Combined1"
computeVMat	function computeVMat
Constant-class	Class "Constant"
convertPKModelAnalyticToPKModelODE	Convert an analytic model to a ode model.
dataForArmEvaluation	dataForArmEvaluation
defineModel	Define a model.
defineModelEquationsFromStringToFunction	defineModelEquationsFromStringToFunction
defineModelFromLibraryOfModels	Define a model from the library of models.
defineModelType	Define the type of a model.
defineModelUserDefined	Define a user defined model.
definePKModel	Define a PK model.
definePKPDModel	Define a PKPD model.
Design-class	Class "Design"
Distribution-class	Class "Distribution"
EvaluateArm	EvaluateArm
EvaluateDesign	EvaluateDesign
EvaluateErrorModelDerivatives	Evaluate the error model derivatives.
EvaluateFisherMatrix	Evaluate the Fisher matrix ( population, individual and...
EvaluateModel	Evaluate a model.
EvaluateModelGradient	Evaluate model gradient.
EvaluateVarianceFIM	Evaluate the variance of the Fisher information matrix.
EvaluateVarianceModel	Evaluate the variance of a model.
Evaluation-class	Class "Evaluation"
FedorovWynnAlgorithm-class	Class "FedorovWynnAlgorithm"
FedorovWynnAlgorithm_Rcpp	Fedorov-Wynn algorithm in Rcpp.
Fim-class	Class "Fim"
fisher.simplex	Compute the fisher.simplex
fun.amoeba	function fun.amoeba
generateFimsFromConstraints	Generate the fim from the constraints
generateReportEvaluation	Generate the report for the evaluation
generateReportOptimization	Generate report for the optimization.
generateSamplingsFromSamplingConstraints	Generate samplings from sampling constraints
generateTables	Generate the tables for the report.
getAdjustedGradient	getAdjustedGradient
getAdministration	getAdministration
getAdministrationConstraint	getAdministrationConstraint
getAdministrations	getAdministrations
getAdministrationsConstraints	getAdministrationsConstraints
getArms	Get the arms of an object.
getcError	Get the parameter c.
getColumnAndParametersNamesFIM	Get the names of the names of the parameters associated to...
getColumnAndParametersNamesFIMInLatex	Get the names of the names of the parameters associated to...
getConditionNumberFixedEffects	Get the condition number of the matrix of the fixed effects.
getConditionNumberVarianceEffects	Get the condition number of the matrix of the variance...
getContent	Get content of a library of models.
getCorrelationMatrix	Get the correlation matrix.
getDataForArmEvaluation	getDataForArmEvaluation
getDataFrameResults	Get the dataframe of the results.
getDcriterion	Get the D criterion of the fim.
getDelta	Get the parameter delta
getDerivatives	Get the derivatives of the model error equation.
getDescription	Get the description of a model.
getDesigns	Get the designs.
getDeterminant	Get the determinant of the fim.
getDistribution	Get the distribution.
getDose	getDose
getEigenValues	Get the eigenvalues of the fim.
getElementaryProtocols	Get the elementary protocols.
getEquation	Get the equation of a model error.
getEquations	Get the equations of a model.
getEquationsAfterInfusion	Get the equations after infusion.
getEquationsDuringInfusion	Get the equations during infusion.
getEvaluationFIMResults	Get the results of the evaluation.
getEvaluationInitialDesignResults	Get the evaluation results of the initial design.
getFim	getFim
getFisherMatrix	Get the FIM.
getFixedEffects	Get the matrix of fixed effects.
getFixedMu	Get the fixed effect.
getFixedOmega	Get the fixed variance.
getFixedParameters	Get the fixed parameters.
getFixedTimes	Get the fixed sampling times.
getInitialConditions	getInitialConditions
getIterationAndCriteria	Get the iteration with the convergence criteria.
getLambda	Get the parameter lambda.
getLibraryPDModels	Get the library of PD models.
getLibraryPKModels	Get the library of PK models.
getMinSampling	Get the minimal sampling times.
getModel	Get the model.
getModelEquations	Get the model equations.
getModelError	Get the model error.
getModelErrorParametersValues	Get the values of the model error parameters.
getModelFromLibrary	Get a model from the library of models.
getModelParameters	Get the model parameters.
getModelParametersValues	Get the values of the model parameters.
getMu	getMu
getName	getName
getNames	getNames
getNumberOfArms	getNumberOfArms
getNumberOfIterations	Get the number of iterations.
getNumberOfParameters	Get the number of parameters.
getNumberOfsamplingsOptimisable	Get the number of sampling times that are optimisable.
getNumberOfTimesByWindows	Get the number of sampling times by windows.
getOdeSolverParameters	getOdeSolverParameters
getOmega	Get the matrix omega of an object.
getOptimalDesign	Get the optimal design.
getOptimalFrequencies	Get the optimal frequencies
getOptimalWeights	Get the optimal weights.
getOptimizationResults	Get the optimization results.
getOptimizer	Get the optimization algorithm.
getOptimizerParameters	Get the optimization parameters.
getOutcome	getOutcome
getOutcomes	Get the outcomes of a model.
getOutcomesEvaluation	getOutcomesEvaluation
getOutcomesForEvaluation	Get the outcomes of a model used for the evaluation (is...
getOutcomesGradient	getOutcomesGradient
getParameters	Get the parameters of an object.
getPDModel	Get a PD model.
getPKModel	Get a PK model.
getPKPDModel	Get a PKPD model.
getPlotOptions	Get the plot options for graphs responses and SI
getProportionsOfSubjects	Get the proportion of subjects.
getRSE	Get the RSE
getSamplings	Get the sampling of an object.
getSamplingsWindows	Get the windows for the sampling times.
getSamplingTime	getSamplingTime
getSamplingTimeConstraint	getSamplingTimeConstraint
getSamplingTimes	getSamplingTimes
getSamplingTimesConstraints	getSamplingTimesConstraints
getSE	Get the SE.
getShrinkage	Get the shrinkage.
getSigmaInter	Get the parameter sigma inter.
getSigmaSlope	Get the parameter sigma slope.
getSize	getSize
getTau	getTau
getTimeDose	getTimeDose
getTinf	Get the infusion duration.
getVariables	Return the variable of an ode model
getVarianceEffects	Get the matrix of the variance effects.
getWeightThreshold	Get the parameter weightThreshold
IndividualFim-class	Class "Fim"
initialize-AdministrationConstraints-method	initialize
initialize-Administration-method	initialize
initialize-Arm-method	initialize
initialize-Combined1-method	initialize
initialize-Constant-method	initialize
initialize-Design-method	initialize
initialize-Distribution-method	initialize
initialize-Evaluation-method	initialize
initialize-FedorovWynnAlgorithm-method	initialize
initialize-Fim-method	initialize
initialize-LibraryOfModels-method	initialize
initialize-LibraryOfPKPDModels-method	initialize
initialize-LogNormal-method	initialize
initialize-ModelAnalyticBolus-method	initialize
initialize-ModelAnalyticBolusSteadyState-method	initialize
initialize-ModelAnalyticInfusion-method	initialize
initialize-ModelAnalyticInfusionSteadyState-method	initialize
initialize-ModelAnalytic-method	initialize
initialize-ModelAnalyticSteadyState-method	initialize
initialize-ModelBolus-method	initialize
initialize-ModelError-method	initialize
initialize-ModelInfusion-method	initialize
initialize-Model-method	initialize
initialize-ModelParameter-method	initialize
initialize-MultiplicativeAlgorithm-method	initialize
initialize-Normal-method	initialize
initialize-OptimizationAlgorithm-method	initialize
initialize-Optimization-method	initialize
initialize-PFIMProject-method	initialize
initialize-PGBOAlgorithm-method	initialize
initialize-Proportional-method	initialize
initialize-PSOAlgorithm-method	initialize
initialize-SamplingTimeConstraints-method	initialize
initialize-SamplingTimes-method	initialize
initialize-SimplexAlgorithm-method	initialize
isDoseInEquations	Test if the dose is in the equations of the model.
isModelAnalytic	Test if a mode is analytic.
isModelBolus	Test if a mode is bolus.
isModelInfusion	Test if a mode is infusion
isModelODE	Test if a mode is ode.
isModelSteadyState	Test if a mode is steady state.
LibraryOfModels-class	Class "LibraryOfModels"
LibraryOfPDModels	Library of the PK models
LibraryOfPKModels	Library of the PK models
LibraryOfPKPDModels-class	Class "LibraryOfPKPDModels"
LogNormal-class	Class "LogNormal"
ModelAnalyticBolus-class	Class "ModelAnalyticBolus"
ModelAnalyticBolusSteadyState-class	Class "ModelAnalyticBolusSteadyState"
ModelAnalytic-class	Class "ModelAnalytic"
ModelAnalyticInfusion-class	Class "ModelAnalyticInfusion"
ModelAnalyticInfusionSteadyState-class	Class "ModelAnalyticInfusionSteadyState"
ModelAnalyticSteadyState-class	Class "ModelAnalyticSteadyState"
ModelBolus-class	Class "ModelBolus"
Model-class	Class "Model"
ModelError-class	Class "ModelError" representing a Model error.
ModelInfusion-class	Class "ModelInfusion"
ModelODE-class	Class "ModelODE"
ModelODEDoseInEquations-class	Class "ModelODEDoseInEquations"
ModelODEDoseNotInEquations-class	Class "ModelODEDoseNotInEquations"
ModelODEInfusion-class	Class "ModelODEInfusion"
ModelODEInfusionDoseInEquations-class	Class "ModelODEInfusionDoseInEquations"
ModelParameter-class	Class "ModelParameter"
MultiplicativeAlgorithm-class	Class "MultiplicativeAlgorithm"
MultiplicativeAlgorithm_Rcpp	Function MultiplicativeAlgorithm_Rcpp
Normal-class	Class "Normal"
OptimizationAlgorithm-class	Class "OptimizationAlgorithm"
Optimization-class	Class "Optimization"
optimize	Optimize a design.
parametersForComputingGradient	Define the parameters for computing the gradients of a model.
PFIM-package	Fisher Information matrix for design evaluation/optimization...
PFIMProject-class	Class "PFIMProject"
PGBOAlgorithm-class	Class "PGBOAlgorithm"
plotEvaluation	Graphs of the results of the evaluation.
PlotEvaluation-class	Class "PlotEvaluation"
plotFrequencies	Graph of the frequencies for the FW algorithm.
plotOutcomesEvaluation	plotOutcomesEvaluation
plotOutcomesGradient	plotOutcomesGradient
plotRSE	Graph of the RSE.
plotSE	Graph the SE.
plotSensitivityIndice	Graphs of the results of the evaluation.
plotShrinkage	Graph of the shrinkage.
plotWeights	Graph of the weights for the multiplicative algorithm.
PopulationFim-class	Class "PopulationFim"
Proportional-class	Class "Proportional"
PSOAlgorithm-class	Class "PSOAlgorithm"
Report	Report
reportTablesAdministration	reportTablesAdministration
reportTablesDesign	reportTablesDesign
reportTablesFIM	Generate the tables for the report.
reportTablesModelError	Generate the tables for model errors for the evaluation...
reportTablesModelParameters	Generate the tables for model parameters for the evaluation...
reportTablesPlot	reportTablesPlot
reportTablesSamplingConstraints	reportTablesSamplingConstraints
resizeFisherMatrix	Resize the fisher Matrix from a vector to a matrix.
run	run
SamplingTimeConstraints-class	Class "SamplingTimeConstraints"
SamplingTimes-class	Class "SamplingTimes"
setAdministrations	setAdministrations
setArm	setArm
setArms	Set the arms of an object.
setcError	Set the parameter c.
setContent	Set content of a library of models.
setDataForArmEvaluation	setDataForArmEvaluation
setDataForModelEvaluation	Generate the table of dose, time dose etc. for model...
setDerivatives	Set the derivatives of the model error equation.
setDescription	Set the description of a model.
setDesigns	Set the designs.
setDistribution	Set the distribution.
setDose	Set the amount of dose
setEquation	Set the equation of a model error.
setEquations	Set the equations of a model.
setEquationsAfterInfusion	Set the equations after infusion.
setEquationsDuringInfusion	Set the equations during infusion.
setEvaluationFIMResults	Set the evaluation results.
setEvaluationInitialDesignResults	Set the evaluation results of the initial design.
setFim	setFim
setFimTypeToString	Convert the type of the object fim to a string.
setFisherMatrix	Set the FIM.
setFixedEffects	Set the fixed effects.
setFixedMu	Set the mu as fixed or not.
setFixedOmega	Set the omega as fixed of not.
setInitialConditions	setInitialConditions
setIterationAndCriteria	Set the iteration with the convergence criteria.
setModel	Set the model.
setModelError	Set the model error.
setModelFromLibrary	Set a model from the library of model
setMu	Set the value of the fixed effect mu of an object.
setName	Set the name of an object.
setNumberOfArms	setNumberOfArms
setOdeSolverParameters	Set the parameters of the ode solver.
setOmega	Set the matrix omega of an object.
setOptimalDesign	Set the optimal design.
setOptimalWeights	Set the optimal weights.
setOptimizationResults	Set the optimization results.
setOutcome	setOutcome
setOutcomes	Set the outcomes of a model.
setOutcomesEvaluation	setOutcomesEvaluation
setOutcomesForEvaluation	Set the outcomes of a model used for the evaluation (is...
setOutcomesGradient	setOutcomesGradient
setParameters	Set the parameters of an object.
setSamplingConstraintForOptimization	setSamplingConstraintForOptimization
setSamplings	Set the sampling times.
setSamplingTime	setSamplingTime
setSamplingTimes	setSamplingTimes
setSamplingTimesConstraints	setSamplingTimesConstraints
setShrinkage	Set the shrinkage.
setSigmaInter	Set the parameter sigma inter.
setSigmaSlope	Set the parameter sigma slope.
setSize	setSize
setTau	setTau
setTimeDose	setTimeDose
setTinf	Set the infusion duration.
setVarianceEffects	Set the matrix of the variance effects.
show	show
SimplexAlgorithm-class	Class "SimplexAlgorithm"