R Observatory: Metrics for PerseusR version 0.3.4

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

This package was removed from CRAN on 2025-03-24. Its history is shown below.

Reason: email to the maintainer is undeliverable

Details below reflect version 0.3.4, its last release before removal.

PerseusR

0.3.4

Perseus R Interop

0packages depend

–downloads / year

–test coverage

–checks pass

Overview

About

Maintained by Jan Rudolph2 releasesCRAN page ↗

Enables the interoperability between the Perseus platform for omics data analysis (Tyanova et al. 2016) doi:10.1038/nmeth.3901 and R. It provides the foundation for developing and running Perseus plugins implemented in R by providing all required input and output handling, including data and parameter parsing as described in Rudolph and Cox 2018 doi:10.1101/447268.

Install

R (source archive)Ubuntu (r2u)

url <- "https://cran.r-project.org/src/contrib/Archive/PerseusR/PerseusR_0.3.4.tar.gz"
pkgFile <- "PerseusR_0.3.4.tar.gz"
download.file(url, pkgFile)
install.packages(pkgFile, type = "source", repos = NULL)

This package is no longer on CRAN, so install.packages() cannot fetch it by name. This downloads the last archived source (0.3.4) and builds it locally. Install its dependencies first, and note that building from source needs the usual compiler toolchain.

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-perseusr

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

Health

CRAN checks

CRAN check results are not tracked yet.

Code health

Yes

Tests · ratio 0.23

not tracked

Coverage

100%

Documentation · exports

6

Dependencies · direct

Documentation

READMEYes · 149 wordsVignettesYes · dynamicpkgdown siteNoNEWSYes · 67% structuredCode of conductNoContributing guideNo

Examples that run: 91%
Documented parameters: 100%
Return-value docs: 39%
References docs: 0%

Downloads

PerseusR Releases R versions

Daily download trend is not available in this view yet.

Compare downloads with other packages →

Also on90 r2u

Dependencies

Declared dependencies

8 external dependencies (excludes base and recommended)

Depends (1)

R >= 3.3.0

Imports (6)

utilsplyrmethodsXML Biobase stringr

LinkingTo (0)

none

Suggests (4)

testthat roxygen2 knitr rmarkdown

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

–indirect (not tracked)

Nothing depends on this yet.

Code & Tests

People & History

People (1)

Other (1)

Jan Rudolph

Contributor

Package Timeline

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

R
R 4.5.0 released · 2025-04-11
archivedRemoved from CRAN
2025-03-24
email to the maintainer is undeliverable
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
0.3.4
2018-11-05 · diff ↗
0.3.3
2018-10-30
R
R 3.5.0 released · 2018-04-23

Package metadata

Total releases: 2
License: MIT + file LICENSE OSI
Minimum R: ≥ 3.3.0
Download size: not tracked yet
Installed size: not tracked yet
With dependencies: not tracked yet

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("PerseusR")

Format

Rudolph, J. (n.d.). PerseusR: Perseus R Interop (Version 0.3.4) [Computer software]. Retrieved August 13, 2026, from https://CRAN.R-project.org/package=PerseusR

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 PerseusR version 0.3.4 [Data set]. HJJB, LLC. Data release v2026-08-11. https://doi.org/10.5281/zenodo.21843040

From data release v2026-08-11, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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