Population Fisher Information Matrix
adjustGradient: adjust the gradient for the log normal distribution.
Administration
AdministrationConstraints
Arm
getArmAdministration: get the administration parameters of an arm.
BayesianFim
checkSamplingTimeConstraintsForMetaheuristic
checkValiditySamplingConstraint: check if the constraints used for the...
Combined1
computeVMat
Constant
constraintsTableForReport: table of the PGBOAlgorithm constraints for ...
convertPKModelAnalyticToPKModelODE: conversion from analytic to ode
Dcriterion: get the D-criterion of the Fim.
define the type of Fisher information matrix: population, individual o...
defineModelAdministration: define the administration
defineModelEquationsFromLibraryOfModel: define the model equations giv...
defineModelType: define the class of the model to be evaluated.
defineModelWrapper: define the model wrapper for the ode solver
Define optimization algorithm
definePKModel: define a PK model from library of model
definePKPDModel: define a PKPD model from library of model
Design
Distribution
evaluateArm: evaluation of the model with the arm parameters.
evaluateDesign: evaluation of a design.
evaluateErrorModelDerivatives; evaluate the derivatives of the model e...
evaluateFim: evaluation of the Fim
evaluateInitialConditions: evaluate the initial conditions.
evaluateModel: evaluate the model
evaluateModelGradient: evaluate the gradient of the model
evaluateModelVariance: evaluate the variance of the model
evaluateVarianceFIM: evaluate the variance
Evaluation
Fedorov-Wynn algorithm in Rcpp.
FedorovWynnAlgorithm
Fim
finiteDifferenceHessian: compute the Hessian
Compute the fisher.simplex
Compute the fun.amoeba
generateDosesCombination: generate the combination for the doses.
Generate FIMs from constraints
generateReportEvaluation: generate the report for the model evaluation...
generateReportOptimization: generate the report for the design optimiz...
generateSamplingsFromSamplingConstraints
generateSamplingTimesCombination: generate the combination for the sam...
getArmConstraints: get the administration and sampling time constraint...
getArmData: extract arm data for The Report
getCorrelationMatrix : get the correlation matrix
getDcriterion : get the Dcriterion
getDeterminant: get the determinant
getFim: get the Fisher matrix.
getFisherMatrix: display the Fisher matrix components
getListLastName: routine to get the names of last element of a nested ...
getModelErrorData: get the parameters sigma slope and sigma inter (use...
getModelParametersData: get model parameters data for report.
getRSE: get the RSE
getSamplingData: extract sampling times and max sampling time used for...
getSE: get the SE
getShrinkage: get the shrinkage
IndividualFim
LibraryOfModels
LibraryOfPDModels
LibraryOfPKModels
Model Linear2BolusSingleDose_ClQV1V2
Model Linear2BolusSingleDose_kk12k21V
Model Linear2BolusSteadyState_ClQV1V2tau
Model Linear2BolusSteadyState_kk12k21Vtau
Model Linear2FirstOrderSingleDose_kaClQV1V2
Model Linear2FirstOrderSingleDose_kakk12k21V
Model Linear2FirstOrderSteadyState_kaClQV1V2tau
Model Linear2FirstOrderSteadyState_kakk12k21Vtau
Model Linear2InfusionSingleDose_ClQV1V2
Model Linear2InfusionSingleDose_kk12k21V
Model Linear2InfusionSteadyState_ClQV1V2tau
Model Linear2InfusionSteadyState_kk12k21Vtau
LogNormal
Model
ModelAnalytic
ModelAnalyticInfusion
ModelAnalyticInfusionSteadyState
ModelAnalyticSteadyState
ModelError
ModelInfusion
ModelODE
ModelODEBolus
ModelODEDoseNotInEquations
ModelODEDoseNotInEquations
ModelODEInfusion
ModelODEInfusionDoseInEquation
ModelParameter
Function MultiplicativeAlgorithm_Rcpp
MultiplicativeAlgorithm
Normal
Optimization
Optimization PGBOAlgorithm
Fisher Information matrix for design evaluation/optimization for nonli...
PFIMProject
PGBOAlgorithm
plotEvaluation: plots for the evaluation of the model responses.
plotEvaluationResults: process for the evaluation of the responses.
plotEvaluationSI: process for the evaluation of the gradient of the re...
Plot frequencies for the FedorovWynn algorithm
plotFrequenciesFedorovWynnAlgorithm
Plot relative standard errors
plotRSEFIM: barplot for the RSE
Plot standard errors
plotSEFIM: barplot for the SE
Plot sensitivity indices.
plotShrinkage: plot the shrinkage values.
Plot weights for the multiplicative algorithm
plotWeightsMultiplicativeAlgorithm: plot the optimal weight.
PopulationFim
processArmEvaluationResults: process for the evaluation of an arm.
processArmEvaluationSI: process for the evaluation of the gradient of ...
Proportional
PSOAlgorithm
replaceVariablesLibraryOfModels: replace variable in the LibraryOfMode...
Generate optimization report
Run optimization
SamplingTimeConstraints
SamplingTimes
setEvaluationFim: set the Fim results.
setOptimalArms: set the optimal arms of an optimization algorithm.
setSamplingConstraintForOptimization: set the sampling time constraint...
Show optimization results
showFIM: show the Fim in the R console.
SimplexAlgorithm
tablesForReport: generate the table for the report.
updateSamplingTimes: update sampling times for plotting used for plot
Evaluate or optimize designs for nonlinear mixed effects models using the Fisher Information matrix. Methods used in the package refer to Mentré F, Mallet A, Baccar D (1997) <doi:10.1093/biomet/84.2.429>, Retout S, Comets E, Samson A, Mentré F (2007) <doi:10.1002/sim.2910>, Bazzoli C, Retout S, Mentré F (2009) <doi:10.1002/sim.3573>, Le Nagard H, Chao L, Tenaillon O (2011) <doi:10.1186/1471-2148-11-326>, Combes FP, Retout S, Frey N, Mentré F (2013) <doi:10.1007/s11095-013-1079-3> and Seurat J, Tang Y, Mentré F, Nguyen TT (2021) <doi:10.1016/j.cmpb.2021.106126>.
Useful links