rPBK: Inference and Prediction of Generic Physiologically-Based Kinetic Models

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>.

Version: 0.2.4
Depends: R (≥ 3.4.0)
Imports: ggplot2, methods, Rcpp (≥ 0.12.0), rstan (≥ 2.26.0), rstantools
LinkingTo: BH (≥ 1.66.0), Rcpp (≥ 0.12.0), RcppEigen (≥ 0.3.3.3.0), RcppParallel (≥ 5.0.1), rstan (≥ 2.26.0), StanHeaders (≥ 2.26.0)
Suggests: knitr, loo, rmarkdown, testthat
Published: 2024-02-26
Author: Virgile Baudrot [aut, cre], Sandrine Charles [aut], Christelle Lopes [aut], Ophélia Gestin [ctb], Dominique Lamonica [ctb], Aurélie Siberchicot [ctb]
Maintainer: Virgile Baudrot <virgile.baudrot at qonfluens.com>
BugReports: https://gitlab.in2p3.fr/mosaic-software/rPBK/-/issues
License: MIT + file LICENSE
URL: https://gitlab.in2p3.fr/mosaic-software/rPBK/
NeedsCompilation: yes
SystemRequirements: GNU make
Materials: README
CRAN checks: rPBK results

Documentation:

Reference manual: rPBK.pdf
Vignettes: Examples

Downloads:

Package source: rPBK_0.2.4.tar.gz
Windows binaries: r-devel: rPBK_0.2.3.zip, r-release: rPBK_0.2.4.zip, r-oldrel: rPBK_0.2.4.zip
macOS binaries: r-release (arm64): rPBK_0.2.4.tgz, r-oldrel (arm64): rPBK_0.2.4.tgz, r-release (x86_64): rPBK_0.2.4.tgz
Old sources: rPBK archive

Linking:

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