R Observatory: Metrics for rnaCrosslinkOO version 0.1.4

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

rnaCrosslinkOO

0.1.4

Analysis of RNA Crosslinking Data

0packages depend

2.2Kdownloads / year

–test coverage

13/13checks pass

Overview

About

Maintained by Jonathan PriceFirst published 2024-02-293 releasesCRAN page ↗GitHub ↗

Analysis of RNA crosslinking data for RNA structure prediction. The package is suitable for the analysis of RNA structure cross-linking data and chemical probing data.

Install

R (CRAN)pak (dev)Ubuntu (r2u)

install.packages("rnaCrosslinkOO", 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("JLP-BioInf/rnaCrosslinkOO")

Development version from JLP-BioInf/rnaCrosslinkOO. 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-rnacrosslinkoo

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

Health

CRAN checks

13OK

Slowest check: 12.9 min · r-oldrel-windows-x86_64

Code health

Yes

Tests · ratio 0.00

not tracked

Coverage

100%

Documentation · exports

25

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
ERROR2026-06-07
12 OK · 0 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE
OK2026-04-25
12 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Show 1 earlier snapshots

ERROR2026-03-10
13 OK · 0 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE

Documentation

READMEYes · 551 wordsVignettesYes · dynamicpkgdown siteNoNEWSNoCode of conductNoContributing guideNo

Examples that run: 88%
Documented parameters: 100%
Return-value docs: 100%
References docs: 0%

Downloads

2.2K

CRAN downloads in the past year

Rank #18,510 · ~6/day · ~184/mo

Releases R versions

Daily download trend is not available in this view yet.

15330 days

59290 days

2.2K1 year

Compare downloads with other packages →

Also on116 r2u

Repository

GitHub ↗ jlp-bioinf/rnacrosslinkoo

2Stars

0Forks

2Open issues

0Open PRs

3Releases

132Commits

5Contributors

comradesrrna-structurerna-structure-predictionpsoralenrna-crosslinking

132 commits · Last activity 2026-05-14

Stars over time

2025-04-09 · 22026-07-07 · 2

Repository practices

Upstream repositoryBeta

Checks run against github.com/jlp-bioinf/rnacrosslinkoo on 2026-08-16.

No development-tooling practices detected in the upstream repository.

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

Dependencies

Declared dependencies

22 external dependencies (excludes base and recommended)

Depends (3)

seqinr GenomicRangesstats

Imports (22)

ggplot2 reshape2MASSmixtoolsutilsS4Vectors patchwork doParallel igraph R4RNA RColorBrewer IRanges foreachgrDevicesheatmap3 TopDom tidyverse RRNA ggrepelmethodsparallelClassDiscovery

LinkingTo (0)

none

Suggests (3)

knitr rmarkdown testthat

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

Code & Tests

Datasets

People & History

People (2)

Maintainer (1)

Jonathan Price

Author, Maintainer

Authors (1)

Jonathan Price

Author, Maintainer

Contributors (1)

Andrew Lim

Contributor

Package Timeline

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

R
R 4.6.0 released · 2026-04-24
R
R 4.5.0 released · 2025-04-11
0.1.4Latest
2024-07-11 · current release · diff ↗
unarchivedReturned to CRAN
2024-07-11
archivedRemoved from CRAN
2024-05-14
requires archived package 'RRNA'
0.1.3
2024-04-29 · diff ↗
R
R 4.4.0 released · 2024-04-24
0.1.2
2024-02-29
R
R 4.3.0 released · 2023-04-21

Package metadata

First published: 2024-02-29
Total releases: 3 / 2 yrs
License: GPL-3 OSI
Download size: 1.5 MB
Installed size: not tracked yet
With dependencies: not tracked yet

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("rnaCrosslinkOO")

Format

Price, J., & Lim, A. (2024). rnaCrosslinkOO: Analysis of RNA Crosslinking Data (Version 0.1.4) [Computer software]. https://doi.org/10.32614/CRAN.package.rnaCrosslinkOO

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 rnaCrosslinkOO version 0.1.4 [Data set]. HJJB, LLC. Data release v2026-08-22. https://doi.org/10.5281/zenodo.21843040

From data release v2026-08-22, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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