rPBK

0.2.5

Inference and Prediction of Generic Physiologically-Based Kinetic Models

0packages depend

2.8Kdownloads / year

65.0%test coverage

11/13checks pass

Overview

About

Maintained by Virgile BaudrotFirst published 2022-09-016 releasesCRAN page ↗

Fit and simulate any kind of physiologically-based kinetic ('PBK') models whatever the number of compartments. Moreover, it allows to account for any link between pairs of compartments, as well as any link of each of the compartments with the external medium. Such generic PBK models have today applications in pharmacology (PBPK models) to describe drug effects, in toxicology and ecotoxicology (PBTK models) to describe chemical substance effects. In case of exposure to a parent compound (drug or chemical) the 'rPBK' package allows to consider metabolites, whatever their number and their phase (I, II, ...). Last but not least, package 'rPBK' can also be used for dynamic flux balance analysis (dFBA) to deal with metabolic networks. See also Charles et al. (2022) doi:10.1101/2022.04.29.490045.

Install

R (CRAN)Ubuntu (r2u)openSUSE (OBS)

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

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

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-rpbk

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

# 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-rPBK

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

Health

CRAN checks

2NOTE11OK

Failing flavors

NOTE r-devel-linux-x86_64-fedora-clang
NOTE r-devel-linux-x86_64-fedora-gcc

Slowest check: 12.7 min · r-oldrel-windows-x86_64

Code health

Yes

Tests · ratio 0.13

65.0%

Coverage · measured lines

100%

Documentation · exports

Dependencies · direct

Check history

NOTE2026-06-08
11 OK · 2 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
WARNING2026-06-07
10 OK · 2 NOTE · 1 WARNING · 0 ERROR · 0 FAILURE
NOTE2026-04-22
9 OK · 5 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
ERROR2026-04-18
8 OK · 5 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE
NOTE2026-03-10
9 OK · 5 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMEYes · 287 wordsVignettesYes · dynamicpkgdown siteNoNEWSNoCode of conductNoContributing guideNo

Examples that run: 100%
Documented parameters: 100%
Return-value docs: 100%
References docs: 10%

Downloads

2.8K

CRAN downloads in the past year

Rank #12,579 · ~8/day · ~237/mo

Releases R versions

Daily download trend is not available in this view yet.

31030 days

83090 days

2.8K1 year

Compare downloads with other packages →

Also on416 r2u26 autocran

Repository

Repository ↗ mosaic-software/rpbk

Repository practices

Upstream repositoryBeta

Repository gitlab.in2p3.fr/mosaic-software/rpbk is linked, but repository-practices checks have not run for it yet. Checks are GitHub-only for now.

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

Dependencies

Declared dependencies

14 external dependencies (excludes base and recommended)

Depends (1)

R >= 3.4.0

Imports (5)

ggplot2methodsRcpp rstan rstantools

LinkingTo (6)

BH Rcpp RcppEigen RcppParallel rstan StanHeaders (>= 2.26.0)

Suggests (4)

knitr loo rmarkdown testthat

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

Code & Tests

Datasets

People & History

People (6)

Maintainer (1)

Virgile Baudrot

Author, Maintainer

Authors (3)

Virgile Baudrot

Author, Maintainer

Sandrine Charles

Author

Christelle Lopes

Author

Contributors (3)

Ophélia Gestin

Contributor

Dominique Lamonica

Contributor

Aurélie Siberchicot

Contributor

Package Timeline

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

R
R 4.6.0 released · 2026-04-24
0.2.5Latest
2025-06-12 · current release · diff ↗
R
R 4.5.0 released · 2025-04-11
R
R 4.4.0 released · 2024-04-24
0.2.4
2024-02-26 · diff ↗
0.2.3
2024-02-01 · diff ↗
0.2.2
2023-09-11 · diff ↗
R
R 4.3.0 released · 2023-04-21
0.2.1
2023-03-15 · diff ↗
0.2.0
2022-09-01
R
R 4.2.0 released · 2022-04-22

Package metadata

First published: 2022-09-01
Total releases: 6 / 4 yrs
License: MIT + file LICENSE OSI
Minimum R: ≥ 3.4.0
Bundled data: 277 KB / 3 files
Download size: 389 KB
Installed size: not tracked yet
With dependencies: not tracked yet

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