Package: pksensi 1.4.0.9000

pksensi: Global Sensitivity Analysis in Physiologically Based Kinetic Modeling

Applying the global sensitivity analysis workflow to investigate the parameter uncertainty and sensitivity in physiologically based kinetic (PK) models, especially the physiologically based pharmacokinetic/toxicokinetic model with multivariate outputs. The package also provides some functions to check the convergence and sensitivity of model parameters. The workflow was first mentioned in Hsieh et al., (2018) <doi:10.3389/fphar.2018.00588>, then further refined (Hsieh et al., 2020 <doi:10.1016/j.softx.2020.100609>).

Authors:Nan-Hung Hsieh [aut, cre], Brad Reisfeld [ctb], Weihsueh A. Chiu [ctb]

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manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
pksensi/json (API)

# Install 'pksensi' in R:
install.packages('pksensi', repos = c('https://nanhung.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/nanhung/pksensi/issues

Pkgdown/docs site:https://nanhung.github.io

Datasets:
  • APAP - Pharmacokinetic Dataset of Acetaminophen

On CRAN:

Conda:

gnu-mcsimpharmacokineticssensitivitysensitivity-analysis

5.81 score 5 stars 128 scripts 305 downloads 15 exports 23 dependencies

Last updated from:a775203eab. Checks:9 OK. Indexed: yes.

TargetResultTimeFilesSyslog
linux-devel-x86_64OK155
source / vignettesOK175
linux-release-x86_64OK197
macos-release-arm64OK176
macos-oldrel-arm64OK160
windows-develOK129
windows-releaseOK97
windows-oldrelOK92
wasm-releaseOK109

Exports:checkcompile_modelFFPKgenerate_infileheat_checkmcsim_installmcsim_versionpbpk_apap_modelpbtk1cpt_modelpksimrfast99set_rtools40_pathsolve_funsolve_mcsimtell2

Dependencies:clicodetoolscpp11data.tabledeSolvedoParallelfarverforeachggplot2gluegtableisobanditeratorslabelinglifecycleR6RColorBrewerrlangS7scalesvctrsviridisLitewithr

Acetaminophen-PBPK model
Prepare and compile the model file | Define the parameter and its distribution | Define additional input condition and output time and variables | Uncertainty analysis | Generate parameter matrix | Conduct the global SA | Visualization and decision | References
Rendered frompbpk_apap.Rmdusingknitr::rmarkdown

Last update: 2022-09-20
Started: 2019-01-19

One-compartment PK model
Equations | Model implementations with deSolve solving engine | Pure R model code | GNU MCSim model code | Model Implementation with GNU MCSim solving engine | Session Info | References
Rendered frompbtk1cpt.Rmdusingknitr::rmarkdown

Last update: 2022-09-05
Started: 2019-01-12