compute.secondary: Computes secondary parameter values

In scaRabee: Optimization Toolkit for Pharmacokinetic-Pharmacodynamic Models

Computes secondary parameter values

Description

compute.secondary is a secondary function called during estimations runs. It evaluates the code provided in the $SECONDARY block of the model file; all parameters defined in this block are considered as secondary parameters at the initial and the final estimates of the model parameters. compute.secondary is typically not called directly by users.

Usage

  compute.secondary(subproblem = NULL,
                    x = NULL)

Arguments

subproblem

A list containing the following levels: code A list of R code extracted from the model file. Depending on content of the model file, the levels of this list could be: template, derived, lags, ode, dde, output, variance, and/or secondary. method A character string, indicating the scale of the analysis. Should be 'population' or 'subject'. init A data.frame of parameter data with the following columns: 'names', 'type', 'value', 'isfix', 'lb', and 'ub'. debugmode Logical indicator of debugging mode. modfun Model function. data A list containing as many levels as there are treatment levels for the subject (or population) being evaluated, plus the trts level listing all treatments for this subject (or population), and the id level giving the identification number of the subject (or set to 1 if the analysis was run at the level of the population. Each treatment-specific level is a list containing the following levels: ana mij x 3 data.frame containing the times of observations of the dependent variables (extracted from the TIME variable), the indicators of the type of dependent variables (extracted from the CMT variable), and the actual dependent variable observations (extracted from the DV variable) for this particular treatment. cov mij x c data.frame containing the times of observations of the dependent variables (extracted from the TIME variable) and all the covariates identified for this particular treatment. bolus bij x 4 data.frame providing the instantaneous inputs for a treatment and individual. infusion fij x (4+c) data.frame providing the zero-order inputs for a treatment and individual. trt the particular treatment identifier.

x

The vector of p final parameter estimates.

Value

Return a list of with the following elements:

init

The vector of s secondary parameter estimates derived from initial structural model parameter estimates.

estimates

The vector of s secondary parameter estimates derived from final structural model parameter estimates.

names

The vector of s secondary parameter names.

Author(s)

Sebastien Bihorel ([e-mail])

See Also

scarabee.analysis, weighting, fitmle, get.secondary

scaRabee documentation built on Jan. 26, 2026, 1:07 a.m.