R Observatory: Metrics for toxEval version 1.4.2

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

toxEval

1.4.2

Exploring Biological Relevance of Environmental Chemistry Observations

0packages depend

3.5Kdownloads / year

63.9%test coverage

13/13checks pass

Overview

About

Maintained by Laura DeCiccoFirst published 2019-03-0610 releasesCRAN page ↗GitHub ↗

Data analysis package for estimating potential biological effects from chemical concentrations in environmental samples. Included are a set of functions to analyze, visualize, and organize measured concentration data as it relates to user-selected chemical-biological interaction benchmark data such as water quality criteria. The intent of these analyses is to develop a better understanding of the potential biological relevance of environmental chemistry data. Results can be used to prioritize which chemicals at which sites may be of greatest concern. These methods are meant to be used as a screening technique to predict potential for biological influence from chemicals that ultimately need to be validated with direct biological assays. A description of the analysis can be found in Blackwell (2017) doi:10.1021/acs.est.7b01613.

Install

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

install.packages("toxEval", 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("DOI-USGS/toxEval")

Development version from DOI-USGS/toxEval. 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-toxeval

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

# 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-toxEval

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-toxEval

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

Health

CRAN checks

13OK

Slowest check: 3.9 min · r-oldrel-windows-x86_64

Code health

Yes

Tests · ratio 0.14

63.9%

Coverage · measured lines

100%

Documentation · exports

14

Dependencies · direct

Check history

OK2026-08-04
13 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
NOTE2026-08-01
12 OK · 1 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
OK2026-06-09
13 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
ERROR2026-06-08
12 OK · 0 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE
OK2026-05-12
13 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Show 2 earlier snapshots

WARNING2026-05-11
12 OK · 0 NOTE · 1 WARNING · 0 ERROR · 0 FAILURE
OK2026-03-10
14 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMEYes · 602 wordsVignettesYes · dynamicpkgdown siteNoNEWSYes · 33% structuredCode of conductNoContributing guideNo

Examples that run: 100%
Documented parameters: 100%
Return-value docs: 52%
References docs: 7%

Downloads

3.5K

CRAN downloads in the past year

Rank #13,220 · ~10/day · ~296/mo

Releases R versions

Daily download trend is not available in this view yet.

21430 days

78290 days

3.5K1 year

Compare downloads with other packages →

Also on185 r2u27 autocran

Repository

GitHub ↗ doi-usgs/toxeval

22Stars

11Forks

9Open issues

0Open PRs

36Releases

1,716Commits

10Contributors

rrstatsr-packagewater-qualitytoxicity

1,716 commits · Last activity 2026-01-23 · 0% stars, 30d

Stars over time

2025-02-27 · 212026-07-07 · 22

Repository practices

Upstream repositoryBeta

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

Checks run against github.com/doi-usgs/toxeval on 2026-08-23.

Continuous integration (2)

GitHub ActionsGitLab CI

Docs source (1)

README.Rmd

Lint, format, editor (1)

lintr

Coverage (1)

Codecov

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

Dependencies

Declared dependencies

19 external dependencies (excludes base and recommended)

Depends (1)

R >= 4.1.0

Imports (14)

dplyr tidyr DT leaflet ggplot2 (>= 3.0.0)magrittr shiny shinydashboard RColorBrewer readxltoolsshinyAce shinycssloadersutils

LinkingTo (0)

none

Suggests (7)

rmarkdown testthat knitr here tcpl openxlsx covr

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

Code & Tests

People & History

People (7)

Maintainer (1)

Laura DeCicco

Author, Maintainer

Authors (5)

Author, Maintainer

Author

Author

Author

Author

Reviewers (2)

Alison Appling

Reviewer

Dalma Martinovic

Reviewer

Package Timeline

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

R
R 4.6.0 released · 2026-04-24
1.4.2Latest
2026-01-23 · current release · diff ↗
1.4.1
2025-09-30 · diff ↗
R
R 4.5.0 released · 2025-04-11
1.4.0
2024-11-22 · diff ↗
R
R 4.4.0 released · 2024-04-24
1.3.2
2024-02-08 · diff ↗
1.3.1
2024-01-30 · diff ↗
R
R 4.3.0 released · 2023-04-21
1.3.0
2023-04-14 · diff ↗
R
R 4.2.0 released · 2022-04-22
R
R 4.1.0 released · 2021-05-18
1.2.0
2020-10-09 · diff ↗
R
R 4.0.0 released · 2020-04-24
1.1.0
2019-11-26 · diff ↗
R
R 3.6.0 released · 2019-04-26

Show 3 earlier events

1.0.4
2019-03-22 · diff ↗
1.0.3
2019-03-06
R
R 3.5.0 released · 2018-04-23

Package metadata

First published: 2019-03-06
Total releases: 10 / 7 yrs
License: CC0
Minimum R: ≥ 4.1.0
Download size: 3.0 MB
Installed size: not tracked yet
With dependencies: not tracked yet

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("toxEval")

Format

DeCicco, L., Ankley, G., Appling, A., Blackwell, B., Corsi, S., Martinovic, D., & Villeneuve, D. (2026). toxEval: Exploring Biological Relevance of Environmental Chemistry Observations (Version 1.4.2) [Computer software]. https://doi.org/10.32614/CRAN.package.toxEval

This is what citation() produces when a package has no citation file of its own. If it prints something else, use that.

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 toxEval version 1.4.2 [Data set]. HJJB, LLC. Data release v2026-08-23. https://doi.org/10.5281/zenodo.21843040

From data release v2026-08-23, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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