R Observatory: Metrics for cooccure version 0.4.0

Balamuta, James Joseph

cooccure

0.4.0

Co-Occurrence Network Construction and Manipulation

0packages depend

1.4Kdownloads / year

94.0%test coverage

13/13checks pass

Overview

About

Maintained by Mohammed SaqrFirst published 2026-04-252 releasesCRAN page ↗GitHub ↗

Constructs co-occurrence networks from several types of input data, such as delimited fields, long/bipartite tables, binary matrices, or wide sequences. Returns tidy edge data frames and supports optional scaling, splitting into several networks, thresholding, and subsetting. Provides eight similarity measures, including Jaccard, cosine, and association strength. Supports export to several network and file formats. Network construction and analysis methods follow Saqr, Lopez-Pernas, Conde, and Hernandez-Garcia (2024, doi:10.1007/978-3-031-54464-4_15).

Install

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

install.packages("cooccure", 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("mohsaqr/cooccure")

Development version from mohsaqr/cooccure. 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-cooccure

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-cooccure

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-cooccure

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

Health

CRAN checks

13OK

Slowest check: 2.9 min · r-release-macos-x86_64

Code health

Yes

Tests · ratio 0.99

94.0%

Coverage · measured lines

100%

Documentation · exports

5

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
OK2026-06-09
13 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
ERROR2026-06-08
12 OK · 0 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE
OK2026-04-25
5 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMEYes · 2,064 wordsVignettesYes · dynamicpkgdown siteNoNEWSYes · 100% structuredCode of conductNoContributing guideNo

Examples that run: 100%
Documented parameters: 99%
Return-value docs: 100%
References docs: 6%

Downloads

1.4K

CRAN downloads in the past year

Rank #7,963 · ~4/day · ~120/mo

Releases R versions

Daily download trend is not available in this view yet.

21630 days

1.2K90 days

1.4K1 year

Compare downloads with other packages →

Also on32 r2u1 autocran

Repository

GitHub ↗ mohsaqr/cooccure

2Stars

1Forks

0Open issues

0Open PRs

0Releases

83Commits

3Contributors

83 commits · Last activity 2026-07-22 · 0% stars, 30d

Stars over time

2026-05-03 · 12026-07-07 · 2

Repository practices

Upstream repositoryBeta

2 development-tooling and community-health practices detected across 2 families in the upstream repository

Checks run against github.com/mohsaqr/cooccure on 2026-08-03.

Continuous integration (1)

GitHub Actions

Reproducibility and dev environment (1)

data-raw/

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

Development tooling

AI-assisted toolingBeta

Uses AI-assisted development tooling (declared in repo)

Earliest detected marker: claude on 2026-04-16

claude

Most recent: claude on 2026-04-16

Evidence

claude: on or before 2026-04-16 · evidence B, D

How this is detected·Detection ruleset v2 (updated 2026-07-29)

Dependencies

Declared dependencies

9 external dependencies (excludes base and recommended)

Depends (1)

R >= 3.5.0

Imports (5)

graphicsMatrixmethodsstatsutils

LinkingTo (0)

none

Suggests (9)

igraph cograph Nestimate tidygraph testthat knitr rmarkdown shiny DT

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

Code & Tests

Datasets

People & History

People (3)

Maintainer (1)

Mohammed Saqr

Author, Maintainer, Copyright holder

Authors (3)

Mohammed Saqr

Author, Maintainer, Copyright holder

Sonsoles López-Pernas

Author, Copyright holder

Kamila Misiejuk

Author, Copyright holder

Copyright holders (3)

Mohammed Saqr

Author, Maintainer, Copyright holder

Sonsoles López-Pernas

Author, Copyright holder

Kamila Misiejuk

Author, Copyright holder

Package Timeline

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

0.4.0Latest
2026-07-22 · current release · diff ↗
0.1.1
2026-04-25
R
R 4.6.0 released · 2026-04-24

Package metadata

First published: 2026-04-25
Total releases: 2 / 1 yrs
License: MIT + file LICENSE OSI
Minimum R: ≥ 3.5.0
Bundled data: 49 KB / 4 files
Download size: not tracked yet
Installed size: not tracked yet
With dependencies: not tracked yet

Cite

Cite this package

Start here. This is the citation for the package itself.

citation("cooccure")

CRAN DOI

https://doi.org/10.32614/CRAN.package.cooccure

BibTeX, derived from DESCRIPTION

@Manual{cooccure,
  title  = {cooccure: Co-Occurrence Network Construction and Manipulation},
  author = {Saqr, Mohammed and López-Pernas, Sonsoles and Misiejuk, Kamila},
  year   = {2026},
  note   = {R package version 0.4.0},
  doi    = {10.32614/CRAN.package.cooccure},
  url    = {https://CRAN.R-project.org/package=cooccure}
}

Derived from the package DESCRIPTION, not from a citation file the authors wrote. If they publish one later, prefer it.

This is the citation for the package. It is not a citation for the R Observatory.

Cite this page

Use this when the claim is about a measurement on this page.

BibTeX

@misc{robservatorycooccure,
  author    = {Balamuta, James Joseph},
  title     = {{R} {Observatory}: Metrics for {cooccure} version 0.4.0},
  year      = {2026},
  publisher = {HJJB, LLC},
  url       = {https://r-observatory.thecoatlessprofessor.com/packages/cooccure},
  note      = {Data set. Data release v2026-08-05}
}

APA

Balamuta, J. J. (2026). R Observatory: Metrics for cooccure version 0.4.0 [Data set]. HJJB, LLC. Data release v2026-08-05. https://r-observatory.thecoatlessprofessor.com/packages/cooccure

RIS

TY  - DATA
AU  - Balamuta, James Joseph
TI  - R Observatory: Metrics for cooccure version 0.4.0
PY  - 2026
PB  - HJJB, LLC
N1  - Data release v2026-08-05
UR  - https://r-observatory.thecoatlessprofessor.com/packages/cooccure
ER  -

In prose

These package metrics were obtained from the R Observatory (Balamuta, 2026), data release v2026-08-05, https://r-observatory.thecoatlessprofessor.com/packages/cooccure.

Bound to data release v2026-08-05, which is what makes the numbers on this page reproducible. See how to cite.

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