parmigene

1.1.1

Parallel Mutual Information Estimation for Gene Network Reconstruction

2packages depend

8.6Kdownloads / year

–test coverage

13/13checks pass

Overview

About

Maintained by Gabriele SalesFirst published 2011-03-115 releasesCRAN page ↗GitHub ↗

Parallel estimation of the mutual information based on entropy estimates from k-nearest neighbors distances and algorithms for the reconstruction of gene regulatory networks (Sales et al, 2011 doi:10.1093/bioinformatics/btr274).

Install

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

install.packages("parmigene", 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("sales-lab/parmigene")

Development version from sales-lab/parmigene. 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-parmigene

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

# 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-parmigene

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

Health

CRAN checks

13OK

Slowest check: 49 s · r-devel-windows-x86_64

Check history

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

Documentation

Documentation signals are not tracked yet for this package.

Downloads

8.6K

CRAN downloads in the past year

Rank #6,393 · ~24/day · ~717/mo

parmigene Releases R versions

Daily download trend is not available in this view yet.

48230 days

1.5K90 days

8.6K1 year

Compare downloads with other packages →

Also on447 r2u17 autocran4.5K conda_forge23 c2d4u

Repository

GitHub ↗ sales-lab/parmigene

7Stars

0Forks

1Open issues

0Open PRs

0Releases

14Commits

1Contributors

License AGPL-3.0 · 14 commits · Last activity 2024-10-21 · 0% stars, 30d

Repository practices

Upstream repositoryBeta

1 development-tooling and community-health practice detected across 1 family in the upstream repository

Checks run against github.com/sales-lab/parmigene on 2026-07-19.

Continuous integration (1)

GitHub Actions

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

Dependencies

Declared dependencies

0 external dependencies (excludes base and recommended)

Depends (0)

none

Imports (0)

none

LinkingTo (0)

none

Suggests (0)

none

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

2direct

0indirect

DysPIA PAC

Code & Tests

People & History

People (2)

Maintainer (1)

Gabriele Sales

Author, Maintainer

Authors (2)

Gabriele Sales

Author, Maintainer

Chiara Romualdi

Author

Package Timeline

5 releases. R releases are shown for context.

R
R 4.6.0 released · 2026-04-24
R
R 4.5.0 released · 2025-04-11
1.1.1Latest
2024-10-21 · current release · diff ↗
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
1.1.0
2020-08-03 · diff ↗
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

Show 7 earlier events

1.0.2
2012-07-23 · diff ↗
1.0.1
2012-07-18 · diff ↗
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
1.0
2011-03-11
R
R 2.12.0 released · 2010-10-15

Package metadata

First published: 2011-03-11
Total releases: 5 / 15 yrs
License: AGPL-3 OSI
Download size: 26 KB
Installed size: not tracked yet
With dependencies: not tracked yet

Appears in task views

Genomics, Proteomics, Metabolomics, Transcriptomics, and Other Omics

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