R Observatory: Metrics for retraction version 0.1.0

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

retraction

0.1.0

Detect Retracted References in Documents and Bibliographies

0packages depend

370downloads / year

67.2%test coverage

13/13checks pass

Overview

About

Maintained by Ahmad Sofi-MahmudiFirst published 2026-07-111 releasesCRAN page ↗GitHub ↗

Scans manuscripts, bibliographies, and reference lists for citations to retracted publications so that authors can avoid citing retracted work. 'retraction' reads bibliographic formats (BibTeX, BibLaTeX, CSL-JSON, RIS, EndNote XML) and document formats (R Markdown, Quarto, 'LaTeX', Markdown, HTML, JATS XML, Word, and PDF), extracts and normalizes identifiers, and checks them against retraction data. The default data source is the Retraction Watch database served through the 'XeraRetractionTracker' API; 'Crossref', 'OpenAlex', 'Europe PMC', 'PubMed', 'DataCite', and a preprint source ('arXiv' and 'bioRxiv' withdrawals) are available as additional sources ('OpenAlex' retraction data is itself derived from Retraction Watch). Within each source, matching proceeds from exact Digital Object Identifier (DOI) and 'PubMed' identifier lookups to fuzzy title matching, and results are returned as a tidy table with a match-quality score and an optional self-contained HTML report.

Install

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

install.packages("retraction", 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("choxos/retraction")

Development version from choxos/retraction. 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-retraction

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-retraction

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-retraction

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

Health

CRAN checks

13OK

Slowest check: 1.8 min · r-oldrel-windows-x86_64

Code health

Yes

Tests · ratio 0.27

67.2%

Coverage · measured lines

100%

Documentation · exports

8

Dependencies · direct

Check history

OK2026-08-05
13 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
NOTE2026-08-01
12 OK · 1 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
OK2026-07-11
8 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMEYes · 743 wordsVignettesYes · dynamicpkgdown siteNoNEWSYes · 67% structuredCode of conductNoContributing guideNo

Examples that run: 24%
Documented parameters: 95%
Return-value docs: 100%
References docs: 0%

Downloads

370

CRAN downloads in the past year

Rank #23,978 · ~1/day · ~31/mo

Releases R versions

Daily download trend is not available in this view yet.

24930 days

37090 days

3701 year

Compare downloads with other packages →

Also on11 r2u5 autocran

Repository

GitHub ↗ choxos/retraction

1Stars

0Forks

0Open issues

0Open PRs

1Releases

22Commits

1Contributors

bibliographycitationscrossrefdoimetascienceopenalexopensciencer-package

License GPL-3.0 · 22 commits · Last activity 2026-07-03

Repository practices

Upstream repositoryBeta

11 development-tooling and community-health practices detected across 6 families in the upstream repository

Checks run against github.com/choxos/retraction on 2026-07-19.

Continuous integration (1)

GitHub Actions

Reproducibility and dev environment (1)

data-raw/

CRAN release process (1)

cran-comments.md

Research and citation (3)

CITATION.cffcodemeta.jsonZenodo

Show all practices

Lint, format, editor (1)

lintr

Governance and community (4)

Issue templatesPR templateSecurity policySupport guide

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

Dependencies

Declared dependencies

23 external dependencies (excludes base and recommended)

Depends (1)

R >= 4.0

Imports (8)

cli httr2 jsonlite stringdist tibbletoolsutilsxml2

LinkingTo (0)

none

Suggests (17)

arrow covr DBI DT furrr future httptest2 knitr pdftools rmarkdown RSQLite rstudioapi shiny stringi (>= 1.5.3)testthat withr writexl

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

Code & Tests

Datasets

People & History

People (1)

Maintainer (1)

Ahmad Sofi-Mahmudi

Author, Maintainer

Authors (1)

Ahmad Sofi-Mahmudi

Author, Maintainer

Package Timeline

1 release. R releases are shown for context.

0.1.0Latest
2026-07-11 · current release
R
R 4.6.0 released · 2026-04-24

Package metadata

First published: 2026-07-11
Total releases: 1 / 1 yrs
License: GPL-3 OSI
Minimum R: ≥ 4.0
Bundled data: 0.5 KB / 1 file
Download size: 275 KB
Installed size: not tracked yet
With dependencies: not tracked yet

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("retraction")

The authors publish a CITATION.cff, so they have said how they want this cited. Run citation() and use what it gives you.

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 retraction version 0.1.0 [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.

Report a problem with this page →