pmxTools

1.5

Pharmacometric and Pharmacokinetic Toolkit

3packages depend

20.9Kdownloads / year

63.1%test coverage

13/13checks pass

Overview

About

Maintained by Justin WilkinsFirst published 2018-03-148 releasesCRAN page ↗GitHub ↗

Pharmacometric tools for common data analytical tasks; closed-form solutions for calculating concentrations at given times after dosing based on compartmental PK models (1-compartment, 2-compartment and 3-compartment, covering infusions, zero- and first-order absorption, and lag times, after single doses and at steady state, per Bertrand & Mentre (2008) https://www.facm.ucl.ac.be/cooperation/Vietnam/WBI-Vietnam-October-2011/Modelling/Monolix32_PKPD_library.pdf); parametric simulation from NONMEM-generated parameter estimates and other output; and parsing, tabulating and plotting results generated by Perl-speaks-NONMEM (PsN).

Install

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

install.packages("pmxTools", 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("kestrel99/pmxTools")

Development version from kestrel99/pmxTools. 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-pmxtools

Fast Ubuntu binaries via r2u (no compilation). The cranapt setup runs once and is skipped when it is already enabled.

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-pmxTools

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

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

# add the autoCRAN OBS repo (Tumbleweed) if it is missing, then install
zypper -q lr | grep -qi autoCRAN \
  || sudo zypper addrepo https://download.opensuse.org/repositories/devel:/languages:/R:/autoCRAN/openSUSE_Tumbleweed/devel:languages:R:autoCRAN.repo
sudo zypper install -y R-pmxTools

RPMs auto-built from CRAN on openSUSE OBS (Tumbleweed).

Health

CRAN checks

13OK

Slowest check: 3.8 min · r-devel-linux-x86_64-fedora-clang

Code health

Yes

Tests · ratio 1.15

63.1%

Coverage · measured lines

100%

Documentation · exports

Dependencies · direct

Check history

OK2026-06-08
13 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
WARNING2026-06-07
12 OK · 0 NOTE · 1 WARNING · 0 ERROR · 0 FAILURE
OK2026-03-10
14 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMEYes · 99 wordsVignettesYes · dynamicpkgdown siteNoNEWSYes · 100% structuredCode of conductNoContributing guideNo

Examples that run: 32%
Documented parameters: 98%
Return-value docs: 95%
References docs: 24%

Downloads

20.9K

CRAN downloads in the past year

Rank #3,716 · ~57/day · ~1.7K/mo

Releases R versions

Daily download trend is not available in this view yet.

1.1K30 days

2.8K90 days

20.9K1 year

Compare downloads with other packages →

Also on120 r2u27 autocran51 c2d4u

Repository

GitHub ↗ kestrel99/pmxtools

35Stars

11Forks

5Open issues

1Open PRs

2Releases

127Commits

4Contributors

simulationnonmempharmacokinetics

127 commits · Last activity 2026-05-02 · +2.9% stars, 30d

Stars over time

2025-03-07 · 312026-07-07 · 35

Repository practices

Upstream repositoryBeta

3 development-tooling and community-health practices detected across 3 families in the upstream repository

Checks run against github.com/kestrel99/pmxtools on 2026-07-19.

Continuous integration (1)

GitHub Actions

Lint, format, editor (1)

RStudio project

Coverage (1)

Codecov

How this is detected·Detection ruleset v1 (2026-07-18)

Dependencies

Declared dependencies

16 external dependencies (excludes base and recommended)

Depends (2)

R >= 4.00patchwork

Imports (12)

ggplot2 chron xml2 dplyr tibble ggdist scalesMASSstringr PKNCA magrittr data.tree

LinkingTo (0)

none

Suggests (4)

testthat vdiffr knitr rmarkdown

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

3direct

0indirect

PKNCA mrgsolve rxode2

Code & Tests

Code Composition

R 6,884 (43%)Other 6,302 (39%)Rd 2,505 (16%)Vignettes 398 (2%)

Code characteristics

Cyclomatic complexity: 1.0 median / 87 max
Test cases: 66 / 1.15 per code line

Test coverage

Line coverage

63%

Expression

60.6%

Tests / Examples

63.1% / – ex

Functions

89 86 exported

Complexity

6.3 avg / 87 max

Call network

89 nodes / 124 edges

Call graph

Open call graph →

Loading call graph…

Lowest coverage

89 functions

Function	Cyclo	Coverage
blq_log_trans exp	2	0%
blq_trans exp	2	0%
calc_sd_1cmt exp	1	0%
calc_sd_2cmt exp	1	0%
calc_sd_3cmt exp	1	0%
calc_ss_1cmt exp	1	0%

People & History

People (9)

Maintainer (1)

Justin Wilkins

Author, Maintainer

Authors (3)

Justin Wilkins

Author, Maintainer

Bill Denney

Author · added in 0.1.3

Rik Schoemaker

Author

Contributors (6)

Contributor

Contributor

Contributor

Contributor

Contributor

Contributor · added in 1.2.3

Package Timeline

8 releases. Pick two to compare their code metrics. R releases are shown for context.

R
R 4.6.0 released · 2026-04-24
1.5Latest
2025-08-25 · current release · diff ↗
R
R 4.5.0 released · 2025-04-11
R
R 4.4.0 released · 2024-04-24
R
R 4.3.0 released · 2023-04-21
1.3
2023-02-21 · diff ↗
R
R 4.2.0 released · 2022-04-22
1.2.3
2022-04-06 · diff ↗
R
R 4.1.0 released · 2021-05-18
1.2.1
2020-08-26 · diff ↗
R
R 4.0.0 released · 2020-04-24
1.0
2020-01-10 · diff ↗
0.1.3
2019-10-28 · diff ↗
R
R 3.6.0 released · 2019-04-26
0.1.1
2019-03-11 · diff ↗
unarchivedReturned to CRAN
2019-03-11

Show 4 earlier events

archivedRemoved from CRAN
2019-01-30
requires archived package 'xpose'
R
R 3.5.0 released · 2018-04-23
0.1.0
2018-03-14
R
R 3.4.0 released · 2017-04-21

Package metadata

First published: 2018-03-14
Total releases: 8 / 8 yrs
License: GPL-2 OSI
Minimum R: ≥ 4.00
Download size: 844 KB
Installed size: not tracked yet
With dependencies: not tracked yet

Appears in task views

Analysis of Pharmacokinetic Data

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