R Observatory: Metrics for plethem version 1.1.0

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

This package was removed from CRAN on 2021-04-22. Its history is shown below.

Reason: requires archived package 'httk'

Details below reflect version 1.1.0, its last release before removal.

plethem

1.1.0Package record

Population Life Course Exposure to Health Effects Modeling

0packages depend

–downloads / year

–test coverage

–flavors OK

Overview

About

Maintained by Jeremy FitzpatrickCRAN page ↗GitHub ↗

Functions, data and user interfaces for performing physiologically based pharmacokinetic ('PBPK') modeling, in-vitro-to-in-vivo Extrapolation ('IVIVE') and exposure estimation. Also contains user interfaces to run models from the 'httk' package. Taken together these provide an easy to use and powerful modeling tool that can be used for all steps along the source-to-outcome continuum.All the analysis tools in the package are run as interactive applications. Check package help for more information. Refer to the manuscript 'Population Life-course exposure to health effects model (PLETHEM): An R package for PBPK modeling' <doi: 10.1016/j.comtox.2019.100115> for more information on the models and algorithms used in the package. More information on PBPK modeling itself can be found in the book 'Physiologically Based Pharmacokinetic Modeling: Science and Applications' by Reddy et al doi:10.1002/0471478768.

Install

R (source archive)pak (dev)

url <- "https://cran.r-project.org/src/contrib/Archive/plethem/plethem_1.1.0.tar.gz"
pkgFile <- "plethem_1.1.0.tar.gz"
download.file(url, pkgFile)
install.packages(pkgFile, type = "source", repos = NULL)

This package is no longer on CRAN, so install.packages() cannot fetch it by name. This downloads the last archived source (1.1.0) and builds it locally. Install its dependencies first, and note that building from source needs the usual compiler toolchain.

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

Development version from ScitoVation/plethem. Installs pak first if it is not already available.

Health

CRAN checks

CRAN check results are not tracked yet.

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 1.1.0

READMEYes · 601 wordsVignettesYes · 1 · dynamicNEWSNoCitation fileNoWebsitenot declared in DESCRIPTION

Help pages: 97
Examples that run: 93%14 run in a plain check (11 of them under a condition) · 1 never run
Exported functions with examples: 16%
Documented parameters: 100%
Return-value docs: 27%
Help pages citing references: 2%

How these are measured

Downloads

plethem Releases R versions

Daily download trend is not available in this view yet.

Compare downloads with other packages →

How downloads are counted

Dependencies

Declared dependencies

44 external dependencies (excludes base and recommended)

Depends (1)

R >= 3.6.0

LinkingTo (0)

none

Suggests (4)

testthat shinytest rmarkdown knitr

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

–indirect (not tracked)

Nothing depends on this yet.

How these are counted

Code & Tests

Datasets

People & History

People (5)

Jeremy Fitzpatrick

Author, Maintainer since 1.1.0 (2020) · added in 1.0.0

Salil Pendse

Author

Kevin Bronson

Author · added in 1.0.0

Patrick McMullen

Contributor · added in 1.0.0

ScitoVation, LLC

Copyright holder

Previously maintained by Salil Pendse (0.1.7 to 1.0.1).

Releases (4)

Pick two releases to compare their code metrics.

R
R 4.1.0 released · 2021-05-18
archivedRemoved from CRAN
2021-04-22
requires archived package 'httk'
unarchivedReturned to CRAN
2020-11-04
1.1.0
record
2020-11-04 · diff ↗ ·
added 4 exports
addPBPKequations, addParameters, createHESIgraphs, createPBPKflowchart
archivedRemoved from CRAN
2020-10-02
check issues were not corrected in time
1.0.1
record
2020-07-16 · diff ↗
unarchivedReturned to CRAN
2020-07-10
1.0.0
record
2020-07-10 · diff ↗ ·
removed 3 exports
createUserDb, doIVIVE, iviveGadget

added 11 exports
clearProjectDb, createEmptyUserDb, getFileFolderPath, importAllExposureData, importAllExposureDataUI, interactivePBPK, interactiveReverseDosimetry, performPlethemNCA, readBatchChemicalFile, readOperaPredictions, runReverseDosimetry
R
R 4.0.0 released · 2020-04-24
archivedRemoved from CRAN
2020-03-29
check problems were not corrected in time
R
R 3.6.0 released · 2019-04-26
0.1.7
record
2019-01-02
R
R 3.5.0 released · 2018-04-23

Package metadata

First published: 2019-01-02
Total releases: 4 / 7 yrs
License: MIT + file LICENSE OSI
Minimum R: ≥ 3.6.0
Bundled data: 256 KB / 2 files

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("plethem")

Format

Pendse, S., Bronson, K., Fitzpatrick, J., McMullen, P., & ScitoVation, LLC. (n.d.). plethem: Population Life Course Exposure to Health Effects Modeling (Version 1.1.0) [Computer software]. Retrieved October 25, 2026, from https://CRAN.R-project.org/package=plethem

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 plethem version 1.1.0 [Data set]. HJJB, LLC. Data release v2026-10-25. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-25, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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