R Observatory: Metrics for bc3net version 1.0.5

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

bc3net

1.0.5

Gene Regulatory Network Inference with Bc3net

0packages depend

7.8Kdownloads / year

–test coverage

13/13checks pass

Overview

About

Maintained by Ricardo de Matos SimoesFirst published 2012-08-298 releasesCRAN page ↗

Implementation of the BC3NET algorithm for gene regulatory network inference (de Matos Simoes and Frank Emmert-Streib, Bagging Statistical Network Inference from Large-Scale Gene Expression Data, PLoS ONE 7(3): e33624, doi:10.1371/journal.pone.0033624).

Install

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

install.packages("bc3net", 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-bc3net

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-bc3net

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-bc3net

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

Health

CRAN checks

13OK

Slowest check: 1.8 min · r-oldrel-windows-x86_64

Code health

None

Tests · ratio 0.00

not tracked

Coverage

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
OK2026-03-10
14 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMENoVignettesNopkgdown siteNoNEWSNoCode of conductNoContributing guideNo

Examples that run: 100%
Documented parameters: not tracked
Return-value docs: not tracked
References docs: 100%

Downloads

7.8K

CRAN downloads in the past year

Rank #5,272 · ~21/day · ~646/mo

Releases R versions

Daily download trend is not available in this view yet.

31630 days

1.5K90 days

7.8K1 year

Compare downloads with other packages →

Also on132 r2u49 autocran1.2K conda_forge195 bioconda

Dependencies

Declared dependencies

3 external dependencies (excludes base and recommended)

Depends (6)

R >= 3.0.0c3net infotheo igraphMatrixlattice

Imports (0)

none

LinkingTo (0)

none

Suggests (0)

none

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

Code & Tests

People & History

People (2)

Maintainer (1)

Ricardo de Matos Simoes

Author, Maintainer

Authors (2)

Ricardo de Matos Simoes

Author, Maintainer

Frank Emmert-Streib

Author

Package Timeline

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

R
R 4.6.0 released · 2026-04-24
1.0.5Latest
2025-05-06 · current release · diff ↗
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
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
1.0.4
2016-11-28 · diff ↗
R
R 3.3.0 released · 2016-05-03
1.0.3
2015-12-31 · diff ↗
R
R 3.2.0 released · 2015-04-16
R
R 3.1.0 released · 2014-04-10

Show 8 earlier events

1.0.2
2013-04-07 · diff ↗
3.0.1
2013-04-04 · diff ↗
R
R 3.0.0 released · 2013-04-03
1.0.1
2013-02-27 · diff ↗
1.0.0
2012-08-29 · diff ↗
R
R 2.15.0 released · 2012-03-30
2.14.2
2012-01-12
R
R 2.14.0 released · 2011-10-31

Package metadata

First published: 2012-08-29
Total releases: 8 / 14 yrs
License: GPL (>= 2) OSI
Minimum R: ≥ 3.0.0
Bundled data: 77 KB / 3 files
Download size: 90 KB
Installed size: not tracked yet
With dependencies: not tracked yet

Appears in task views

Network Analysis

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("bc3net")

Format

de Matos Simoes, R., & Emmert-Streib, F. (2025). bc3net: Gene Regulatory Network Inference with Bc3net (Version 1.0.5) [Computer software]. https://doi.org/10.32614/CRAN.package.bc3net

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 bc3net version 1.0.5 [Data set]. HJJB, LLC. Data release v2026-08-18. https://doi.org/10.5281/zenodo.21843040

From data release v2026-08-18, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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