R Observatory: Metrics for invitroTKstats version 0.0.14

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

invitroTKstats

0.0.14Package record

In Vitro Toxicokinetic Data Processing and Analysis Pipeline

0packages depend

2.6Kdownloads / year

–test coverage

13/13flavors OK

Overview

About

Maintained by Caroline RingCRAN page ↗GitHub ↗Issues ↗

A set of tools for processing and analyzing in vitro toxicokinetic measurements in a standardized and reproducible pipeline. The package was developed to perform frequentist and Bayesian estimation on a variety of in vitro toxicokinetic measurements including -- but not limited to -- chemical fraction unbound in the presence of plasma (f_up), intrinsic hepatic clearance (Clint, uL/min/million hepatocytes), and membrane permeability for oral absorption (Caco2). The methods provided by the package were described in Wambaugh et al. (2019) doi:10.1093/toxsci/kfz205.

Changes in 0.0.14

Maintainer transfer
Minor documentation updates

--------------

From NEWS.md in the release

Install

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

install.packages("invitroTKstats", 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("USEPA/invitroTKstats")

Development version from USEPA/invitroTKstats. 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-invitrotkstats

Fast Ubuntu binaries via r2u (no compilation). The cranapt setup runs once and is skipped when it is already enabled. We list this channel from recorded r2u download activity rather than from a live index of the repository, so treat it as last known rather than guaranteed.

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-invitroTKstats

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-invitroTKstats

RPMs auto-built from CRAN on openSUSE OBS (Tumbleweed). We list this channel from recorded autoCRAN download activity rather than from a live index of the repository, so treat it as last known rather than guaranteed.

Health

CRAN checks

13OK

CRAN check page ↗

Slowest check: 4.8 min · r-oldrel-macos-x86_64

Status changes

OK13 OK2026-08-05
NOTE12 OK, 1 NOTE2026-08-01
OK14 OK2026-03-10

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 0.0.14

READMEYes · 771 wordsVignettesYes · 7 · dynamicNEWSYes · 100% structured · mentions 0.0.14Citation fileNoWebsitenot declared in DESCRIPTION

Help pages: 67
Examples that run: 86%18 run in a plain check (1 of them under a condition) · 3 never run
Exported functions with examples: 100%
Documented parameters: 100%
Return-value docs: 100%
Help pages citing references: 61% with a bibliography file

Vignettes (7)

How these are measured

Downloads

2.6K

CRAN downloads in the past year

Rank #19,313 · ~7/day · ~218/mo

Releases R versions

Daily download trend is not available in this view yet.

34730 days

68190 days

2.6K1 year

Compare downloads with other packages →

Also on80 r2u4 autocran

How downloads are counted

Repository

usepa/invitrotkstats ↗Organization: USEPA

3Stars

0Forks

0Open issues

0Open PRs

2Releases

905Commits

8Commit identities

905 commits · Last activity 2026-02-13 · 0% stars, 30d

Responsiveness

How these are sampled

PRs merged (all time): 100%
Median days to close, 50 most recently updated closed issues: 28
Median days to close, 50 most recently updated closed PRs: 21

Stars over time

2025-08-28 · 22026-07-11 · 3

How these are measured

PracticesBeta

4 development-tooling and community-health practices detected across 4 families in the upstream repository

Checks run against github.com/usepa/invitrotkstats on 2026-10-18.

Docs source (1)

README.Rmd

Reproducibility and dev environment (1)

data-raw/

CRAN release process (1)

cran-comments.md

Lint, format, editor (1)

RStudio project

How this is detected·Detection ruleset v3 (2026-09-26)

Dependencies

Declared dependencies

17 external dependencies (excludes base and recommended)

Installing invitroTKstats adds 36 packages (15 with compiled code, 21 MB of source tarballs). Heaviest: ggplot2 6.0 MB, readxl 2.1 MB, isoband 1.5 MB.

Depends (1)

R >= 3.5.0

Imports (13)

runjagsparallelreadxl coda ggplot2 scalesstats4Rdpackmethodsstatsutilsdplyr rlang

LinkingTo (0)

none

Suggests (9)

knitr R.rsp tidyverse gridExtra gridtext flextable rmarkdown magrittr stringr

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

How these are counted

Code & Tests

Datasets

People & History

People (9)

Caroline Ring

Maintainer since 0.0.14 (2026) · added in 0.0.14

Sarah E. Davidson-Fritz

Author

Author

Contributor

Contributor

Contributor

Contributor

Contributor

U.S. Federal Government

Copyright holder

Copyright holder of this package

Previously maintained by Sarah E. Davidson-Fritz (0.0.13).

Releases (2)

Pick two releases to compare their code metrics.

R
R 4.6.0 released · 2026-04-24
0.0.14Latest
record
2026-01-26 · current release · diff ↗
0.0.13
record
2025-08-19
R
R 4.5.0 released · 2025-04-11

Package metadata

First published: 2025-08-19
Total releases: 2 / 1 yrs
License: MIT + file LICENSE OSI
Minimum R: ≥ 3.5.0
Bundled data: 124 KB / 6 files
Download size: 3.2 MB

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("invitroTKstats")

Format

Ring, C., U.S. Federal Government, Davidson-Fritz, S. E., Knupp, L., Kreutz, A., Nicolas, C., Wambaugh, J., Wetmore, B. A., & Zhihui, Z. (2026). invitroTKstats: In Vitro Toxicokinetic Data Processing and Analysis Pipeline (Version 0.0.14) [Computer software]. https://doi.org/10.32614/CRAN.package.invitroTKstats

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 invitroTKstats version 0.0.14 [Data set]. HJJB, LLC. Data release v2026-10-22. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-22, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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