build_nm_dataset

Build a NONMEM-format dataset from cleaned DM/EX/PC tables.
Time-varying covariates (VS, LB, ...) are NOT merged here. Use
<code>merge_cov_locf</code> afterwards to add them. CRCL is added
separately via <code>add_crcl_cg</code>. Molar conversion is done with
<code>nm_to_molar</code>.

This shows how NONMEM(R) software works. NONMEM's classical
estimation methods like 'First Order(FO) approximation', 'First Order
Conditional Estimation(FOCE)', and 'Laplacian approximation' are explained.
Additionally, provides functions for post-run processing of NONMEM output
files, generating comprehensive PDF diagnostic reports including objective
function value analysis, parameter estimates, prediction diagnostics,
residual diagnostics, empirical Bayes estimate (EBE) analysis, input data
summary, and individual pharmacokinetic parameter distributions.

Kyun-Seop Bae

Understanding Nonlinear Mixed Effects Modeling for Population
Pharmacokinetics

build_nm_dataset function

<dl><dt>DM</dt>
<dd>data.frame with one row per subject. Must contain SUBJID; any
other columns are merged in as subject-level constants.</dd>
<dt>EX</dt>
<dd>dose records (see <code>build_dose_records</code>).</dd>
<dt>PC</dt>
<dd>observation records (see <code>build_obs_records</code>).</dd>
<dt>IDs</dt>
<dd>character vector of SUBJIDs to keep. NULL (default) is the
intersect of EX and PC where DV &gt; 0.</dd>
<dt>id_prefix</dt>
<dd>character. When <code>id_func</code> is NULL,
ID = paste0(id_prefix, SUBJID).</dd>
<dt>id_func</dt>
<dd>function(SUBJID) -&gt; character ID. Overrides <code>id_prefix</code>.</dd>
<dt>dose_cmt</dt>
<dd>default compartment for dose records lacking a CMT column.</dd>
<dt>verbose</dt>
<dd>print progress. Default FALSE.</dd></dl>

Arguments

Build a NONMEM-Format Dataset from DM/EX/PC — build_nm_dataset

<dl>

<dt>DM</dt>
<dd>data.frame with one row per subject. Must contain SUBJID; any
other columns are merged in as subject-level constants.</dd>


<dt>EX</dt>
<dd>dose records (see <code>build_dose_records</code>).</dd>


<dt>PC</dt>
<dd>observation records (see <code>build_obs_records</code>).</dd>


<dt>IDs</dt>
<dd>character vector of SUBJIDs to keep. NULL (default) is the
intersect of EX and PC where DV &gt; 0.</dd>


<dt>id_prefix</dt>
<dd>character. When <code>id_func</code> is NULL,
ID = paste0(id_prefix, SUBJID).</dd>


<dt>id_func</dt>
<dd>function(SUBJID) -&gt; character ID. Overrides <code>id_prefix</code>.</dd>


<dt>dose_cmt</dt>
<dd>default compartment for dose records lacking a CMT column.</dd>


<dt>verbose</dt>
<dd>print progress. Default FALSE.</dd>

</dl>

build_nm_dataset: Build a NONMEM-Format Dataset from DM/EX/PC

Description

Usage

Value

Arguments

Details