R Observatory: Metrics for nlmixr2autoinit version 1.0.1

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

nlmixr2autoinit

1.0.1Package record

Automatic Generation of Initial Estimates for Population Pharmacokinetic Modeling

1packages dependsuggested by 1

3.3Kdownloads / year

–test coverage

13/13flavors OK

Overview

About

Maintained by Zhonghui HuangCRAN page ↗GitHub ↗Website ↗Issues ↗

Provides automated methods for generating initial parameter estimates in population pharmacokinetic modeling. The pipeline integrates adaptive single-point methods, naive pooled graphic approaches, noncompartmental analysis methods, and parameter sweeping across pharmacokinetic models. It estimates residual unexplained variability using either data-driven or fixed-fraction approaches and assigns pragmatic initial values for inter-individual variability. These strategies are designed to improve model robustness and convergence in 'nlmixr2' workflows. For more details see Huang Z, Fidler M, Lan M, Cheng IL, Kloprogge F, Standing JF (2025) doi:10.1007/s10928-025-10000-z.

Install

R (CRAN)pak (dev)Ubuntu (r2u)Fedora (COPR)

install.packages("nlmixr2autoinit", repos = "https://cloud.r-project.org/")

Installs the current CRAN release. Prebuilt binaries on Windows and macOS.

if (!requireNamespace("pak", quietly = TRUE))
  install.packages("pak", repos = "https://cloud.r-project.org/")
pak::pak("ucl-pharmacometrics/nlmixr2autoinit")

Development version from ucl-pharmacometrics/nlmixr2autoinit. Installs pak first if it is not already available.

Release

# enable cranapt (r2u) if it is not already set up, then install
grep -rqs r2u.stat.illinois.edu /etc/apt/sources.list /etc/apt/sources.list.d/ \
  || curl -fsSL https://raw.githubusercontent.com/eddelbuettel/r2u/master/inst/scripts/add_cranapt_noble.sh | sudo bash
sudo apt install -y r-cran-nlmixr2autoinit

Fast Ubuntu binaries via r2u (no compilation). The cranapt setup runs once and is skipped when it is already enabled. We list this channel from recorded r2u download activity rather than from a live index of the repository, so treat it as last known rather than guaranteed.

bspm (used by r2u) also needs make: sudo apt install make

# enable the iucar/cran COPR if it is not already present, then install
ls /etc/yum.repos.d/*iucar*cran*.repo >/dev/null 2>&1 \
  || sudo dnf copr enable -y iucar/cran
sudo dnf install -y R-CRAN-nlmixr2autoinit

RPMs from the iucar/cran COPR, rebuilt from CRAN.

For install.packages() integration in R, also: sudo dnf install R-CoprManager

Health

CRAN checks

13OK

CRAN check page ↗

Slowest check: 3.8 min · r-oldrel-windows-x86_64

Status changes

OK13 OK2026-10-03
ERROR12 OK, 1 ERROR2026-09-15
OK13 OK2026-08-12
ERROR10 OK, 1 NOTE, 2 ERROR2026-08-04
NOTE12 OK, 1 NOTE2026-08-01

Show 3 earlier changesHide 3 earlier changes

OK13 OK2026-06-09
ERROR12 OK, 1 ERROR2026-06-08
OK14 OK2026-03-10

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 1.0.1

READMENoVignettesNoNEWSNoCitation fileNoWebsiteYes

Help pages: 52
Examples that run: 75%39 run in a plain check · 13 only when donttest examples are enabled (R CMD check --as-cran)
Exported functions with examples: 100%
Documented parameters: 98%
Return-value docs: 100%
Help pages citing references: 2%

How these are measured

Downloads

3.3K

CRAN downloads in the past year

Rank #7,237 · ~9/day · ~277/mo

Releases R versions

Daily download trend is not available in this view yet.

42330 days

1.2K90 days

3.3K1 year

Compare downloads with other packages →

Also on81 r2u

How downloads are counted

Repository

ucl-pharmacometrics/nlmixr2autoinit ↗

Responsiveness

not measured

How these are measured

PracticesBeta

Repository github.com/ucl-pharmacometrics/nlmixr2autoinit is linked, but repository-practices checks have not run for it yet.

How this is detected·Detection ruleset v4 (2026-10-20)

Dependencies

Declared dependencies

13 external dependencies (excludes base and recommended)

Installing nlmixr2autoinit adds 144 packages (90 with compiled code, 115 MB of source tarballs). Heaviest: BH 14 MB, stringi 11 MB, ggplot2 6.0 MB.

Depends (2)

R >= 4.0nlmixr2data

Imports (12)

nlmixr2 nlmixr2est rxode2 dplyr tidyr crayon purrr knitr magrittr progressr tibble vpc

LinkingTo (0)

none

Suggests (0)

none

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

1direct

0indirect

Imports 1

Suggested by 1

Depends, Imports or LinkingTo, most downloaded first

nlmixr2auto

Suggests, most downloaded first

nlmixr2

How these are counted

Code & Tests

People & History

People (4)

Zhonghui Huang

Author, Maintainer since 1.0.0 (2025)

Matthew Fidler

Contributor

Frank Kloprogge

Contributor

Joseph Standing

Contributor

Releases (2)

Pick two releases to compare their code metrics.

1.0.1Latest
record
2026-06-08 · current release · diff ↗ ·
removed 8 exports
run_npd_1cmpt_iv, run_npd_1cmpt_mm_iv, run_npd_1cmpt_mm_oral, run_npd_1cmpt_oral, run_npd_2cmpt_iv, run_npd_2cmpt_oral, run_npd_3cmpt_iv, run_npd_3cmpt_oral
R
R 4.6.0 released · 2026-04-24
1.0.0
record
2025-11-13
R
R 4.5.0 released · 2025-04-11

Package metadata

First published: 2025-11-13
Total releases: 2 / 1 yrs
License: GPL (>= 3) OSI
Minimum R: ≥ 4.0
Download size: 91 KB

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("nlmixr2autoinit")

Format

Huang, Z., Fidler, M., Kloprogge, F., & Standing, J. (2026). nlmixr2autoinit: Automatic Generation of Initial Estimates for Population Pharmacokinetic Modeling (Version 1.0.1) [Computer software]. https://doi.org/10.32614/CRAN.package.nlmixr2autoinit

This package has no citation file, so citation() returns this entry built from DESCRIPTION.

Cite the R Observatory

For a number measured here: a download total, a coverage figure, an archival date.

Format

APA

Balamuta, J. J. (2026). R Observatory: Metrics for nlmixr2autoinit version 1.0.1 [Data set]. HJJB, LLC. Data release v2026-10-23. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-23, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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