R Observatory: Metrics for PMA version 1.2-4

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

PMA

1.2-4

Penalized Multivariate Analysis

5packages depend

27.1Kdownloads / year

–test coverage

13/13checks pass

Overview

About

Maintained by Balasubramanian NarasimhanFirst published 2009-02-1218 releasesCRAN page ↗GitHub ↗

Performs Penalized Multivariate Analysis: a penalized matrix decomposition, sparse principal components analysis, and sparse canonical correlation analysis, described in Witten, Tibshirani and Hastie (2009) doi:10.1093/biostatistics/kxp008 and Witten and Tibshirani (2009) Extensions of sparse canonical correlation analysis, with applications to genomic data doi:10.2202/1544-6115.1470.

Install

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

install.packages("PMA", 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("bnaras/PMA")

Development version from bnaras/PMA. 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-pma

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-PMA

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

Health

CRAN checks

13OK

Slowest check: 3.0 min · r-devel-windows-x86_64

Code health

None

Tests · ratio 0.00

not tracked

Coverage

100%

Documentation · exports

1

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

READMEYes · 13 wordsVignettesNopkgdown siteNoNEWSYes · 100% structuredCode of conductNoContributing guideNo

Examples that run: 89%
Documented parameters: 99%
Return-value docs: 90%
References docs: 100%

Downloads

27.1K

CRAN downloads in the past year

Rank #3,776 · ~74/day · ~2.3K/mo

Releases R versions

Daily download trend is not available in this view yet.

61630 days

2.4K90 days

27.1K1 year

Compare downloads with other packages →

Also on475 r2u17 autocran3.2K conda_forge985 bioconda20 c2d4u

Repository

GitHub ↗ bnaras/pma

7Stars

3Forks

10Open issues

0Open PRs

0Releases

19Commits

1Contributors

19 commits · Last activity 2024-09-03 · 0% stars, 30d

Stars over time

2025-08-23 · 72026-07-07 · 7

Repository practices

Upstream repositoryBeta

2 development-tooling and community-health practices detected across 2 families in the upstream repository

Checks run against github.com/bnaras/pma on 2026-08-23.

Continuous integration (1)

GitHub Actions

Docs source (1)

README.Rmd

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

Dependencies

Declared dependencies

0 external dependencies (excludes base and recommended)

Depends (1)

R >= 2.10

Imports (1)

utils

LinkingTo (0)

none

Suggests (0)

none

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

5direct

0indirect

HMC prinvars ccar3 conos epca

Code & Tests

People & History

People (4)

Maintainer (1)

Balasubramanian Narasimhan

Maintainer, Author · added in 1.0.8

Authors (4)

Balasubramanian Narasimhan

Maintainer, Author · added in 1.0.8

Sam Gross

Author · added in 1.0.4

Rob Tibshirani

Author

Daniela Witten

Author

Package Timeline

18 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
1.2-4Latest
2024-09-03 · current release · diff ↗
R
R 4.4.0 released · 2024-04-24
1.2-3
2024-02-07 · diff ↗
1.2-2
2023-07-20 · 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
1.2.1
2020-02-03 · diff ↗
1.2
2020-01-16 · diff ↗
unarchivedReturned to CRAN
2020-01-16
R
R 3.6.0 released · 2019-04-26
1.1
2019-02-05 · diff ↗
R
R 3.5.0 released · 2018-04-23

Show 26 earlier events

1.0.11
2018-04-20 · diff ↗
1.0.10
2018-04-20 · diff ↗
orphanedOrphaned by its maintainer
2018-04-20
check problems were not corrected despite multiple notifications Including C++ misuse of = for == and non-registration of S3 methods
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
1.0.9
2013-03-25 · diff ↗
R
R 2.15.0 released · 2012-03-30
R
R 2.14.0 released · 2011-10-31
1.0.8
2011-08-11 · diff ↗
R
R 2.13.0 released · 2011-04-13
1.0.7.1
2011-02-06 · diff ↗
R
R 2.12.0 released · 2010-10-15
1.0.7
2010-05-16 · diff ↗
1.0.6
2010-04-22 · diff ↗
R
R 2.11.0 released · 2010-04-22
1.0.5
2009-12-06 · diff ↗
R
R 2.10.0 released · 2009-10-26
1.0.4
2009-10-23 · diff ↗
R
R 2.9.0 released · 2009-04-17
1.0.2
2009-04-15 · diff ↗
1.0.1
2009-02-16 · diff ↗
1.0
2009-02-12
R
R 2.8.0 released · 2008-10-20

Package metadata

First published: 2009-02-12
Total releases: 18 / 17 yrs
License: GPL (>= 2) OSI
Minimum R: ≥ 2.10
Download size: 76 KB
Installed size: not tracked yet
With dependencies: not tracked yet

Appears in task views

Genomics, Proteomics, Metabolomics, Transcriptomics, and Other Omics

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("PMA")

Format

Narasimhan, B., Gross, S., Tibshirani, R., & Witten, D. (2024). PMA: Penalized Multivariate Analysis (Version 1.2-4) [Computer software]. https://doi.org/10.32614/CRAN.package.PMA

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 PMA version 1.2-4 [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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