R Observatory: Metrics for c3net version 1.1.1.1

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

c3net

1.1.1.1

Inferring Large-Scale Gene Networks with C3NET

1packages depend

6.7Kdownloads / year

–test coverage

11/13flavors OK

Overview

About

Maintained by Gokmen AltayCRAN page ↗

Allows inferring gene regulatory networks with direct physical interactions from microarray expression data using C3NET.

Install

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

install.packages("c3net", repos = "https://cloud.r-project.org/")

Installs the current CRAN release. Prebuilt binaries on Windows and macOS.

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-c3net

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-c3net

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-c3net

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

2NOTE11OK

Check messages

NOTECRAN incoming feasibilityr-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc

Maintainer: ‘Gokmen Altay <altayscience@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Gokmen",
                      family = "Altay",
                      role = c("aut", "cre"),
                      email = "altayscience@gmail.com"),
               person(given = "Frank",
                      family = "Emmert-Streib",
                      role = "aut"))
as necessary.

Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.

CRAN check page ↗

Slowest check: 3.7 min · r-release-macos-x86_64

Status changes

NOTE11 OK, 2 NOTENow
NOTE12 OK, 2 NOTE2026-03-10

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 1.1.1.1

READMEYes · 446 wordsVignettesNoNEWSNoCitation fileYes · cites a publicationWebsitenot declared in DESCRIPTION

Help pages: 10
Examples that run: 100%10 run in a plain check
Exported functions with examples: 100%
Documented parameters: not tracked
Return-value docs: not tracked
Help pages citing references: 100%

How these are measured

Downloads

6.7K

CRAN downloads in the past year

Rank #5,528 · ~18/day · ~561/mo

Releases R versions

Daily download trend is not available in this view yet.

46630 days

1.4K90 days

6.7K1 year

Compare downloads with other packages →

Also on110 r2u17 autocran1.1K conda_forge

How downloads are counted

Dependencies

Declared dependencies

1 external dependency (excludes base and recommended)

Installing c3net adds 9 packages (6 with compiled code, 8.0 MB of source tarballs). Heaviest: igraph 4.8 MB, vctrs 1.0 MB, rlang 766 KB.

Depends (2)

R >= 2.12.1igraph

Imports (0)

none

LinkingTo (0)

none

Suggests (0)

none

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

1direct

0indirect

Depends 1

Depends, Imports or LinkingTo, most downloaded first

bc3net

How these are counted

Code & Tests

Datasets

People & History

People (from the free-text Author field) (2)

Gokmen Altay

Frank Emmert-Streib

Maintainer since 1.1.0

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
R
R 4.4.0 released · 2024-04-24
R
R 4.3.0 released · 2023-04-21
1.1.1.1Latest
record
2022-06-24 · current release · diff ↗
R
R 4.2.0 released · 2022-04-22
R
R 4.1.0 released · 2021-05-18
R
R 4.0.0 released · 2020-04-24
R
R 3.6.0 released · 2019-04-26
R
R 3.5.0 released · 2018-04-23
R
R 3.4.0 released · 2017-04-21
R
R 3.3.0 released · 2016-05-03
R
R 3.2.0 released · 2015-04-16
R
R 3.1.0 released · 2014-04-10
R
R 3.0.0 released · 2013-04-03
1.1.1
record
2012-07-23 · diff ↗ ·
added 1 export
pattern:.

Show 5 earlier eventsHide 5 earlier events

R
R 2.15.0 released · 2012-03-30
R
R 2.14.0 released · 2011-10-31
R
R 2.13.0 released · 2011-04-13
1.1.0
record
2011-01-27
R
R 2.12.0 released · 2010-10-15

Package metadata

First published: 2011-01-27
Total releases: 3 / 15 yrs
License: GPL (>= 3) OSI
Minimum R: ≥ 2.12.1
Bundled data: 369 KB / 2 files
Download size: 497 KB

Appears in task views

Network Analysis

Cite

Cite this package

Run in R for the authors' entry:

citation("c3net")

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 c3net version 1.1.1.1 [Data set]. HJJB, LLC. Data release v2026-10-17. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-17, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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