R Observatory: Metrics for rnaCrosslinkOO version 0.1.4

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

rnaCrosslinkOO

0.1.4Package record

Analysis of RNA Crosslinking Data

0packages depend

2.4Kdownloads / year

–test coverage

13/13flavors OK

Overview

About

Maintained by Jonathan PriceCRAN page ↗GitHub ↗Issues ↗

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. 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

Health

CRAN checks

13OK

CRAN check page ↗

Slowest check: 13.0 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 ERROR2026-06-07
OK12 OK2026-04-25

Show 1 earlier changeHide 1 earlier change

ERROR13 OK, 1 ERROR2026-03-10

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 0.1.4

READMEYes · 551 wordsVignettesYes · 1 · dynamicNEWSNoCitation fileYes · cites a publicationWebsitenot declared in DESCRIPTION

Help pages: 54 (1 internal)includes a package overview page
Examples that run: 88%35 run in a plain check · 5 never run
Exported functions with examples: 100%
Documented parameters: 100%
Return-value docs: 100%
Help pages citing references: 0%

Vignettes (1)

rnaCrosslinksOO

How these are measured

Downloads

2.4K

CRAN downloads in the past year

Rank #18,474 · ~7/day · ~203/mo

Releases R versions

Daily download trend is not available in this view yet.

27530 days

70490 days

2.4K1 year

Compare downloads with other packages →

Also on75 r2u

How downloads are counted

Repository

jlp-bioinf/rnacrosslinkoo ↗Account: JLP-BioInf

2Stars

0Forks

2Open issues

0Open PRs

3Releases

132Commits

5Commit identities

comradesrrna-structurerna-structure-predictionpsoralenrna-crosslinking

132 commits · Last activity 2026-05-14

Responsiveness

not measured

Stars over time

2025-04-09 · 22026-07-07 · 2

How these are measured

PracticesBeta

Checks run against github.com/jlp-bioinf/rnacrosslinkoo on 2026-10-18.

No development-tooling practices detected in the upstream repository.

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

Dependencies

Declared dependencies

22 external dependencies (excludes base and recommended)

Installing rnaCrosslinkOO adds 132 packages (65 with compiled code, 110 MB of source tarballs). Heaviest: stringi 11 MB, ggplot2 6.0 MB, data.table 5.7 MB. 5 more not on CRAN are not measured.

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.

How these are counted

Code & Tests

Datasets

People & History

People (2)

Jonathan Price

Author, Maintainer since 0.1.2 (2024)

Andrew Lim

Contributor

Releases (3)

Pick two releases to compare their code metrics.

R
R 4.6.0 released · 2026-04-24
R
R 4.5.0 released · 2025-04-11
unarchivedReturned to CRAN
2024-07-11
0.1.4Latest
record
2024-07-11 · current release · diff ↗
archivedRemoved from CRAN
2024-05-14
requires archived package 'RRNA'
0.1.3
record
2024-04-29 · diff ↗ ·
added 1 export
rnaCrosslinkQC
R
R 4.4.0 released · 2024-04-24
0.1.2
record
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

Cite

Cite this package

Run in R for the authors' entry:

citation("rnaCrosslinkOO")

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

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 v2026-10-22. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-22, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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