R Observatory: Metrics for ctxR version 1.1.3

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

ctxR

1.1.3Package record

Utilities for Interacting with the 'CTX' APIs

1packages depend

9.8Kdownloads / year

66.5%test coverage

13/13flavors OK

Overview

About

Maintained by Madison FeshukCRAN page ↗GitHub ↗Website ↗Issues ↗

Access chemical, hazard, bioactivity, and exposure data from the Computational Toxicology and Exposure ('CTX') APIs https://www.epa.gov/comptox-tools/computational-toxicology-and-exposure-apis. 'ctxR' was developed to streamline the process of accessing the information available through the 'CTX' APIs without requiring prior knowledge of how to use APIs. Most data is also available on the CompTox Chemical Dashboard ('CCD') https://comptox.epa.gov/dashboard/ and other resources found at the EPA Computational Toxicology and Exposure Online Resources https://www.epa.gov/comptox-tools.

Changes in 1.1.3

Major improvements and fixes

Update api host from cloud.gov to local server throughout package (#70)

New Features

Added functions for the Exposure domain CCD endpoints get_product_use_category(),

get_product_use_categories_batch(), get_production_volume(),

get_production_volume_batch(), get_biomonitoring_data(), get_biomonitoring_data_batch(),

get_general_use_keywords(), get_general_use_keywords_batch(), get_reported_functional_use(),

get_reported_functional_use_batch(), get_chemical_weight_fraction(), and

get_chemical_weight_fraction_batch() (#71).

Added functions for Exposure domain MMDB endpoints get_medium_categories(),

get_single_sample_records_by_dtxsid(), get_single_sample_records_by_dtxsid_batch(),

get_single_sample_records_by_medium(), get_single_sample_records_by_medium_batch(),

Show all changes in 1.1.3Hide the rest of the changes in 1.1.3

get_aggregate_records_by_dtxsid(), get_aggregate_records_by_dtxsid_batch(),

get_aggregate_records_by_medium(), get_aggregate_records_by_medium_batch() (#71).

Added examples to ctxR_04_Exposure.Rmd vignette for new CCD and MMDB endpoint

functions (#71).

From NEWS.md in the release

Install

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

install.packages("ctxR", 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/ctxR")

Development version from USEPA/ctxR. 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-ctxr

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-ctxR

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-ctxR

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: 3.7 min · r-oldrel-windows-x86_64

Status changes

OK13 OK2026-08-05
NOTE12 OK, 1 NOTE2026-08-01
OK13 OK2026-06-09
ERROR12 OK, 1 ERROR2026-06-08
OK14 OK2026-03-10

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 1.1.3

READMEYes · 331 wordsVignettesYes · 5 · evaluation depends on the environmentNEWSYes · 100% structured · mentions 1.1.3Citation fileYes · cites a publicationWebsiteYes · pkgdown

Help pages: 128 (7 internal)
Examples that run: 100%121 run in a plain check (121 of them under a condition)
Exported functions with examples: 100%
Documented parameters: 100%
Return-value docs: 100%
Help pages citing references: 0%

Vignettes (5)

How these are measured

Downloads

9.8K

CRAN downloads in the past year

Rank #4,930 · ~27/day · ~819/mo

Releases R versions

Daily download trend is not available in this view yet.

60830 days

1.7K90 days

9.8K1 year

Compare downloads with other packages →

Also on102 r2u15 autocran1.1K conda_forge

How downloads are counted

Repository

usepa/ctxr ↗Organization: USEPA

23Stars

11Forks

7Open issues

1Open PRs

5Releases

1,141Commits

6Commit identities

comptoxccteordapictxresearch

License file reads as GPL-3.0 · 1,141 commits · Last activity 2026-10-09 · 0% stars, 30d · Default branch at 1.1.3.9000, ahead of CRAN 1.1.3 (checked 2026-10-18)

Responsiveness

How these are sampled

PRs merged (all time): 98%
Median days to close, 50 most recently updated closed issues: 12
Median days to close, 50 most recently updated closed PRs: 4

Stars over time

2025-09-08 · 152026-09-18 · 23

How these are measured

PracticesBeta

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

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

Continuous integration (1)

GitHub Actions

Governance and community (1)

Contributing guide

Docs source (4)

README.Rmdpkgdown

GitHub Pages site last deployed 2026-10-09 · The repository has a site deploy workflow

pkgdown site last built 2024-08-05, before release 1.1.3 (2025-10-08)

CRAN release process (3)

cran-comments.mdrevdep/CRAN-SUBMISSION

Show all practicesHide 1 practice

Lint, format, editor (1)

RStudio project

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

Dependencies

Declared dependencies

25 external dependencies (excludes base and recommended)

Installing ctxR adds 31 packages (22 with compiled code, 28 MB of source tarballs). Heaviest: stringi 11 MB, data.table 5.7 MB, Rcpp 1.8 MB.

Depends (1)

R >= 3.5

Imports (11)

cli data.table httr jsonlite purrr rlang stringr tidyr tibble urltools lifecycle

LinkingTo (0)

none

Suggests (14)

countcolors devtools DT ggplot2 gridExtra htmlTable httptest kableExtra knitr prettydoc rmarkdown rmdformats testthat XML

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

1direct

0indirect

Imports 1

Depends, Imports or LinkingTo, most downloaded first

tcpl

How these are counted

Code & Tests

Datasets

People & History

People (6)

Madison Feshuk

Contributor, Maintainer since 1.1.2 (2025)

Author

Author

Contributor

Contributor · added in 1.1.3

Carter Thunes

Contributor

Previously maintained by Jason Brown (1.1.1) and Paul Kruse (1.0.0 to 1.1.0).

Releases (5)

Pick two releases to compare their code metrics.

R
R 4.6.0 released · 2026-04-24
1.1.3Latest
record
2025-10-08 · current release · diff ↗ ·
added 26 exports
get_aggregate_records_by_dtxsid, get_aggregate_records_by_dtxsid_batch, get_aggregate_records_by_medium, get_aggregate_records_by_medium_batch, get_biomonitoring_data, get_biomonitoring_data_batch, get_chem_props_exp, get_chem_props_exp_batch, get_chem_props_pred, get_chem_props_pred_batch, get_chem_props_summary, get_chemical_weight_fraction, get_chemical_weight_fraction_batch, get_general_use_keywords, get_general_use_keywords_batch, get_medium_categories, get_product_use_categories_batch, get_product_use_category, get_production_volume, get_production_volume_batch, get_reported_functional_use, get_reported_functional_use_batch, get_single_sample_records_by_dtxsid, get_single_sample_records_by_dtxsid_batch, get_single_sample_records_by_medium, get_single_sample_records_by_medium_batch
R
R 4.5.0 released · 2025-04-11
1.1.2
record
2025-04-07 · diff ↗
1.1.1
record
2025-04-02 · diff ↗
1.1.0
record
2025-01-08 · diff ↗ ·
added 15 exports
check_existence_by_dtxsid, check_existence_by_dtxsid_batch, get_all_list_types, get_chemicals_in_list_contain, get_chemicals_in_list_contain_batch, get_chemicals_in_list_exact, get_chemicals_in_list_exact_batch, get_chemicals_in_list_start, get_chemicals_in_list_start_batch, get_demographic_exposure_prediction, get_demographic_exposure_prediction_batch, get_general_exposure_prediction, get_general_exposure_prediction_batch, get_httk_data, get_httk_data_batch
1.0.0
record
2024-07-04
R
R 4.4.0 released · 2024-04-24

Package metadata

First published: 2024-07-04
Total releases: 5 / 2 yrs
License: GPL (>= 3) OSI
Minimum R: ≥ 3.5
Bundled data: 0.5 KB / 4 files
Download size: 4.5 MB

Cite

Cite this package

Run in R for the authors' entry:

citation("ctxR")

The package provides a citation file, so citation() returns the authors' own entry.

It points to 10.1016/j.namjnl.2025.100031.

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 ctxR version 1.1.3 [Data set]. HJJB, LLC. Data release v2026-10-20. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-20, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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