Population (and Individual) Optimal Experimental Design

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Documentation for package ‘PopED’ version 0.6.0

• DESCRIPTION file.
• User guides, package vignettes and other documentation.
• Package NEWS.

Help Pages

PopED-package	PopED - *Pop*ulation (and individual) optimal *E*xperimental *D*esign.
a_line_search	Optimize using line search
build_sfg	Build PopED parameter function from a model function
calc_ofv_and_fim	Calculate the Fisher Information Matrix (FIM) and the OFV(FIM) for either point values or parameters or distributions.
cell	Create a cell array (a matrix of lists)
create.poped.database	Create a PopED database
create_design	Create design variables for a full description of a design.
create_design_space	Create design variables and a design space for a full description of an optimization problem.
design_summary	Display a summary of output from poped_db
efficiency	Compute efficiency.
evaluate.e.ofv.fim	Evaluate the expectation of the Fisher Information Matrix (FIM) and the expectation of the OFV(FIM).
evaluate.fim	Evaluate the Fisher Information Matrix (FIM)
evaluate_design	Evaluate a design
evaluate_fim_map	Compute the Bayesian Fisher information matrix
evaluate_power	Power of a design to estimate a parameter.
feps.add	RUV model: Additive .
feps.add.prop	RUV model: Additive and Proportional.
feps.prop	RUV model: Proportional.
ff.PK.1.comp.oral.md.CL	Structural model: one-compartment, oral absorption, multiple bolus dose, parameterized using CL.
ff.PK.1.comp.oral.md.KE	Structural model: one-compartment, oral absorption, multiple bolus dose, parameterized using KE.
ff.PK.1.comp.oral.sd.CL	Structural model: one-compartment, oral absorption, single bolus dose, parameterized using CL.
ff.PK.1.comp.oral.sd.KE	Structural model: one-compartment, oral absorption, single bolus dose, parameterized using KE.
ff.PKPD.1.comp.oral.md.CL.imax	Structural model: one-compartment, oral absorption, multiple bolus dose, parameterized using CL driving an inhibitory IMAX model with a direct effect.
ff.PKPD.1.comp.sd.CL.emax	Structural model: one-compartment, single bolus IV dose, parameterized using CL driving an EMAX model with a direct effect.
get_rse	Compute the expected parameter relative standard errors
LEDoptim	Optimization function for D-family, E-family and Laplace approximated ED designs
mc_mean	Compute the monte-carlo mean of a function
median_hilow_poped	Wrap summary functions from Hmisc and ggplot to work with stat_summary in ggplot
model_prediction	Model predictions
ofv_criterion	Normalize an objective function by the size of the FIM matrix
ofv_fim	Evaluate a criterion of the Fisher Information Matrix (FIM)
ones	Create a matrix of ones
optimize_groupsize	Title Optimize the proportion of individuals in the design groups
optimize_n_eff	Translate efficiency to number of subjects
optimize_n_rse	Optimize the number of subjects based on desired uncertainty of a parameter.
optim_ARS	Optimize a function using adaptive random search.
optim_LS	Optimize a function using a line search algorithm.
pargen	Parameter simulation
plot_efficiency_of_windows	Plot the efficiency of windows
plot_model_prediction	Plot model predictions
PopED	PopED - *Pop*ulation (and individual) optimal *E*xperimental *D*esign.
poped	PopED - *Pop*ulation (and individual) optimal *E*xperimental *D*esign.
poped_gui	Run the graphical interface for PopED
poped_optim	Optimize a design defined in a PopED database
poped_optimize	Retired optimization module for PopED
RS_opt	Optimize the objective function using an adaptive random search algorithm for D-family and E-family designs.
shrinkage	Predict shrinkage of empirical Bayes estimates (EBEs) in a population model
size	Function written to match MATLAB's size function
start_parallel	Start parallel computational processes
summary.poped_optim	Display a summary of output from poped_optim
tic	Timer function (as in MATLAB)
toc	Timer function (as in MATLAB)
zeros	Create a matrix of zeros.