read_nm_files: NONMEM output file import function

In xpose: Diagnostics for Pharmacometric Models

NONMEM output file import function

Description

Quickly import NONMEM output files into R.

Usage

read_nm_files(
  runno = NULL,
  prefix = "run",
  ext = c(".ext", ".cor", ".cov", ".phi", ".grd", ".shk"),
  file = NULL,
  dir = NULL,
  quiet = FALSE
)

Arguments

runno	Run number to be evaluated.
prefix	Prefix of the model file names.
ext	A vector of the file extension to import. By default '.ext', '.cor', '.cov', '.phi', '.grd', '.shk' files are listed.
file	Names of the model output file to be imported. Alternative argument to prefix, runno and ext.
dir	Location of the model files.
quiet	Logical, if FALSE messages are printed to the console.

File path generation

The rules for model file names generation are as follow:

• with runno: the full path is generated as <dir>/<prefix><runno>.<ext> e.g. with dir = 'model/pk', prefix = 'run', runno = '001', ext = '.lst' the resulting path would be model/pk/run001.lst

• with file: the full path is generated as <dir>/<file> e.g. with dir = 'model/pk', file = 'run001.lst' the resulting path would also be model/pk/run001.lst. Note: in this case the file extension should be provided as part of the 'file' argument.

See Also

xpose_data, read_nm_tables

Examples

## Not run: 
# Using the `file` argument to import a model file:
ext_file <- read_nm_files(file = 'run001.ext', dir = 'models')

# Using the `runno` argument to import a model file:
ext_file <- read_nm_files(runno = '001', ext = '.ext', dir = 'models')

## End(Not run)

xpose documentation built on May 29, 2024, 5:12 a.m.