R Observatory: Metrics for ribiosGraph version 1.1.0

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

ribiosGraph

1.1.0Package record

Manipulate and Visualize Graphs in the 'ribios' Software Suite

0packages depend

1.5Kdownloads / year

48.3%test coverage

13/13flavors OK

Overview

About

Maintained by Jitao David ZhangCRAN page ↗GitHub ↗Issues ↗

Tools to manipulate and visualize graphs (networks) for computational biology in drug discovery, for instance functions for creating bipartite graphs and for interactive visualizations. Zhang (2025) https://github.com/bedapub/ribiosGraph.

Changes in 1.1.0

Initial CRAN submission
Package prepared for CRAN submission with comprehensive documentation
Depends on ribiosUtils (on CRAN) and igraph

From NEWS.md in the release

Install

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

install.packages("ribiosGraph", 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("bedapub/ribiosGraph")

Development version from bedapub/ribiosGraph. 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-ribiosgraph

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-ribiosGraph

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-ribiosGraph

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: 1.6 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 1.1.0

READMEYes · 72 wordsVignettesNoNEWSYes · 100% structured · mentions 1.1.0Citation fileNoWebsitenot declared in DESCRIPTION

Help pages: 6
Examples that run: 100%6 run in a plain check
Exported functions with examples: 100%
Documented parameters: 92%
Return-value docs: 100%
Help pages citing references: 0%

How these are measured

Downloads

1.5K

CRAN downloads in the past year

Rank #24,202 · ~4/day · ~123/mo

Releases R versions

Daily download trend is not available in this view yet.

17830 days

51790 days

1.5K1 year

Compare downloads with other packages →

Also on47 r2u3 autocran

How downloads are counted

Repository

bedapub/ribiosgraph ↗Organization: bedapub

0Stars

1Forks

0Open issues

0Open PRs

0Releases

62Commits

2Commit identities

62 commits · Last activity 2026-02-18

Responsiveness

How these are sampled

PRs merged (all time): 83%
Median days to close, 50 most recently updated closed issues: not measured
Median days to close, 50 most recently updated closed PRs: 0

Forks over time

2021-02-18 · 12026-07-07 · 1

How these are measured

PracticesBeta

4 development-tooling and community-health practices detected across 3 families in the upstream repository

Checks run against github.com/bedapub/ribiosgraph on 2026-10-21.

Continuous integration (2)

GitHub ActionsR CMD check workflow

The R CMD check workflow runs on Linux, macOS and Windows, and on R-devel

Reproducibility and dev environment (1)

Makefile

CRAN release process (1)

cran-comments.md

How this is detected·Detection ruleset v4 (2026-10-20)

AI coding toolsBeta

This repository shows signs of AI coding tools.

Claude Codefirst seen 2026-01-25
Named in .Rbuildignore: .claude, CLAUDE.md
Commits: at least 5 crediting it in the message

Models named in its commits

Claude Opus 4.53 commits · Jan to Feb 2026
Claude Opus 4.62 commits · Feb 2026

Counts are commits, not lines of code. Commits by a tool's accounts count once across all of its accounts. Commits crediting it are the largest count among its credit lines, a minimum.How this is detected·Detection ruleset v4 (updated 2026-09-27)

Dependencies

Declared dependencies

5 external dependencies (excludes base and recommended)

Installing ribiosGraph adds 66 packages (37 with compiled code, 68 MB of source tarballs). Heaviest: stringi 11 MB, ggplot2 6.0 MB, data.table 5.7 MB.

Depends (2)

R >= 3.4.0igraph

Imports (3)

magrittr plotly ribiosUtils

LinkingTo (0)

none

Suggests (1)

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 (1)

Jitao David Zhang

Author, Maintainer since 1.1.0 (2026)

Releases (1)

R
R 4.6.0 released · 2026-04-24
1.1.0Latest
record
2026-02-20 · current release
R
R 4.5.0 released · 2025-04-11

Package metadata

First published: 2026-02-20
Total releases: 1 / 1 yrs
License: GPL-3 OSI
Minimum R: ≥ 3.4.0
Download size: 120 KB

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("ribiosGraph")

Format

Zhang, J. D. (2026). ribiosGraph: Manipulate and Visualize Graphs in the 'ribios' Software Suite (Version 1.1.0) [Computer software]. https://doi.org/10.32614/CRAN.package.ribiosGraph

This package has no citation file, so citation() returns this entry built from DESCRIPTION.

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 ribiosGraph version 1.1.0 [Data set]. HJJB, LLC. Data release v2026-10-24. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-24, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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