read_scm: Read PsN SCM output into a format suitable for further use.

In pmxTools: Pharmacometric and Pharmacokinetic Toolkit

Read PsN SCM output into a format suitable for further use.

Description

read_scm returns a summary of a Perl-speaks-NONMEM (PsN, https://uupharmacometrics.github.io/PsN/) SCM (stepwise covariate modeling) procedure. It depends on the presence of scmlog.txt and short_scmlog.txt files in the specified directory.

Usage

read_scm(dir, startPhase = "forward")

Arguments

dir	A PsN SCM folder (containing scmlog.txt and short_scmlog.txt).
startPhase	Where to start collating the output; can be "forward" (the default) or "backward".

Value

A list of data frames, containing

forward	all models evaluated during the forward inclusion step of covariate model building
forwardSummary	the covariate relationships selected at each forward step
forwardP	the P-value used for inclusion during the forward inclusion step
backward	all models evaluated during the backward elimination step of covariate model building
backwardSummary	the covariate relationships eliminated at each backward step
backwardP	the P-value used for exclusion during the backward elimination step

Author(s)

Justin Wilkins, [e-mail]

See Also

NONMEM (https://www.iconplc.com/innovation/nonmem/)

Lindbom L, Ribbing J & Jonsson EN (2004). Perl-speaks-NONMEM (PsN) - A Perl module for NONMEM related programming. Computer Methods and Programs in Biomedicine, 75(2), 85-94. doi: 10.1016/j.cmpb.2003.11.003

Lindbom L, Pihlgren P & Jonsson N (2005). PsN-Toolkit - A collection of computer intensive statistical methods for non-linear mixed effect modeling using NONMEM. Computer Methods and Programs in Biomedicine, 79(3), 241-257. doi: 10.1016/j.cmpb.2005.04.005

Other NONMEM reading: plot_scm(), read_nm_all(), read_nm_multi_table(), read_nmcov(), read_nmext(), read_nmtables(), read_nm()

Examples

## Not run: 
scm <- read_scm("E:/DrugX/ModelDevelopment/scm310")

## End(Not run)

pmxTools documentation built on March 7, 2023, 7:58 p.m.