R Observatory: Metrics for plsgenomics version 1.5-3

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

plsgenomics

1.5-3

PLS Analyses for Genomics

2packages depend

7.4Kdownloads / year

–test coverage

11/13checks pass

Overview

About

Maintained by Ghislain DurifFirst published 2005-04-1117 releasesCRAN page ↗GitHub ↗

Routines for PLS-based genomic analyses, implementing PLS methods for classification with microarray data and prediction of transcription factor activities from combined ChIP-chip analysis. The >=1.2-1 versions include two new classification methods for microarray data: GSIM and Ridge PLS. The >=1.3 versions includes a new classification method combining variable selection and compression in logistic regression context: logit-SPLS; and an adaptive version of the sparse PLS.

Install

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

install.packages("plsgenomics", 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("gdurif/plsgenomics")

Development version from gdurif/plsgenomics. 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-plsgenomics

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-plsgenomics

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-plsgenomics

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

Health

CRAN checks

2NOTE11OK

Failing flavors

NOTE r-devel-linux-x86_64-debian-clang
NOTE r-devel-linux-x86_64-debian-gcc

Slowest check: 2.6 min · r-oldrel-windows-x86_64

Code health

None

Tests · ratio 0.00

not tracked

Coverage

7

Dependencies · direct

Check history

NOTE2026-03-10
12 OK · 2 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMENoVignettesNopkgdown siteNoNEWSNoCode of conductNoContributing guideNo

Examples that run: 53%
Documented parameters: not tracked
Return-value docs: not tracked
References docs: 89%

Downloads

7.4K

CRAN downloads in the past year

Rank #6,995 · ~20/day · ~615/mo

Releases R versions

Daily download trend is not available in this view yet.

29530 days

1.2K90 days

7.4K1 year

Compare downloads with other packages →

Also on123 r2u33 autocran1.2K conda_forge195 bioconda95 c2d4u

Repository

GitHub ↗ gdurif/plsgenomics

1Stars

0Forks

0Open issues

0Open PRs

0Releases

349Commits

4Contributors

349 commits · Last activity 2024-03-27 · 0% stars, 30d

Stars over time

2026-03-24 · 12026-07-07 · 1

Repository practices

Upstream repositoryBeta

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

Checks run against github.com/gdurif/plsgenomics on 2026-08-23.

Lint, format, editor (1)

RStudio project

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

Dependencies

Declared dependencies

4 external dependencies (excludes base and recommended)

Depends (1)

R >= 3.0

Imports (7)

MASSbootparallelreshape2 plyr fields RhpcBLASctl

LinkingTo (0)

none

Suggests (0)

none

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

2direct

0indirect

MultiGroupO NetGreg

Code & Tests

Datasets

People & History

People (0)

Author records are not tracked yet for this package.

Listed in earlier versions (5)

Anne-Laure Boulesteix

no longer listed · 1.0 to 1.5-3

and Korbinian Strimmer.

no longer listed · 1.0 to 1.5-3

Sophie Lambert-Lacroix

no longer listed · 1.2 to 1.5-3

Julie Peyre

no longer listed · 1.2 to 1.5-3

Ghislain Durif

no longer listed · 1.3 to 1.5-3

Package Timeline

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

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
1.5-3Latest
2024-03-28 · current release · diff ↗
1.5-2.1
2023-11-27 · diff ↗
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
1.5-2
2018-08-24 · diff ↗
R
R 3.5.0 released · 2018-04-23
1.5-1
2017-09-14 · diff ↗
1.5
2017-08-30 · diff ↗
1.3-2
2017-05-02 · diff ↗
R
R 3.4.0 released · 2017-04-21

Show 31 earlier events

R
R 3.3.0 released · 2016-05-03
1.3-1
2015-05-11 · diff ↗
1.3
2015-05-07 · diff ↗
R
R 3.2.0 released · 2015-04-16
1.2-6
2014-12-25 · diff ↗
R
R 3.1.0 released · 2014-04-10
R
R 3.0.0 released · 2013-04-03
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
R
R 2.12.0 released · 2010-10-15
R
R 2.11.0 released · 2010-04-22
R
R 2.10.0 released · 2009-10-26
1.2-4
2009-05-29 · diff ↗
R
R 2.9.0 released · 2009-04-17
R
R 2.8.0 released · 2008-10-20
R
R 2.7.0 released · 2008-04-22
R
R 2.6.0 released · 2007-10-03
R
R 2.5.0 released · 2007-04-24
1.2-2
2007-02-15 · diff ↗
R
R 2.4.0 released · 2006-10-03
1.2-1
2006-09-29 · diff ↗
R
R 2.3.0 released · 2006-04-24
1.2
2006-04-04 · diff ↗
1.1.2
2005-12-21 · diff ↗
1.1.1
2005-12-16 · diff ↗
R
R 2.2.0 released · 2005-10-06
1.1
2005-05-10 · diff ↗
R
R 2.1.0 released · 2005-04-18
1.0
2005-04-11
R
R 2.0.0 released · 2004-10-04

Package metadata

First published: 2005-04-11
Total releases: 17 / 21 yrs
License: GPL (>= 2) OSI
Minimum R: ≥ 3.0
Bundled data: 1.1 MB / 5 files
Download size: 1.2 MB
Installed size: not tracked yet
With dependencies: not tracked yet

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("plsgenomics")

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 plsgenomics version 1.5-3 [Data set]. HJJB, LLC. Data release v2026-08-23. https://doi.org/10.5281/zenodo.21843040

From data release v2026-08-23, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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