R Observatory: Metrics for RUVIIIC version 1.0.19

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

This package was removed from CRAN on 2023-11-27. Its history is shown below.

Reason: email to the maintainer was undeliverable

Details below reflect version 1.0.19, its last release before removal.

RUVIIIC

1.0.19

RUV-III-C

0packages depend

–downloads / year

–test coverage

–checks pass

Overview

About

Maintained by Rohan Shah4 releasesCRAN page ↗

Variations of Remove Unwanted Variation-III (RUV-III) known as RUV-III-C (RUV-III Complete). RUV-III performs normalisation using negative control variables and replication. RUV-III-C extends this method to cases where the data contains missing values, by applying RUV-III to complete subsets of the data. Originally designed for SWATH-MS proteomics datasets. Poulos et al. (2020) doi:10.1038/s41467-020-17641-3.

Install

R (source archive)Ubuntu (r2u)openSUSE (OBS)

url <- "https://cran.r-project.org/src/contrib/Archive/RUVIIIC/RUVIIIC_1.0.19.tar.gz"
pkgFile <- "RUVIIIC_1.0.19.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 (1.0.19) 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-ruviiic

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-RUVIIIC

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

Health

CRAN checks

CRAN check results are not tracked yet.

Code health

Yes

Tests · ratio 1.36

not tracked

Coverage

100%

Documentation · exports

2

Dependencies · direct

Documentation

READMENoVignettesNopkgdown siteNoNEWSNoCode of conductNoContributing guideNo

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

Downloads

Releases R versions

Daily download trend is not available in this view yet.

Compare downloads with other packages →

Also on317 r2u12 autocran20 c2d4u

Dependencies

Declared dependencies

8 external dependencies (excludes base and recommended)

Depends (3)

R >= 3.5RSpectra progress

Imports (0)

none

LinkingTo (4)

Rcpp RcppEigen RSpectra RcppProgress

Suggests (2)

ruv testthat

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

–indirect (not tracked)

Nothing depends on this yet.

Code & Tests

Datasets

People & History

People (4)

Maintainer (1)

Rohan Shah

Author, Maintainer

Authors (1)

Rohan Shah

Author, Maintainer

Contributors (2)

Sean Peters

Contributor

Qing Zhong

Contributor

Copyright holders (1)

Children's Medical Research Institute

Copyright holder · added in 1.0.18

Package Timeline

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

R
R 4.4.0 released · 2024-04-24
archivedRemoved from CRAN
2023-11-27
email to the maintainer was undeliverable
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
1.0.19
2021-04-23 · diff ↗
1.0.18
2021-04-10 · diff ↗
unarchivedReturned to CRAN
2021-04-10
archivedRemoved from CRAN
2020-09-21
problems were not corrected in time
1.0.17
2020-09-08 · diff ↗
1.0.16
2020-09-04
R
R 4.0.0 released · 2020-04-24

Package metadata

Total releases: 4
License: MIT + file LICENSE OSI
Minimum R: ≥ 3.5
Bundled data: 367 KB / 1 file
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("RUVIIIC")

Format

Shah, R., Peters, S., Zhong, Q., & Children's Medical Research Institute. (n.d.). RUVIIIC: RUV-III-C (Version 1.0.19) [Computer software]. Retrieved August 14, 2026, from https://CRAN.R-project.org/package=RUVIIIC

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 RUVIIIC version 1.0.19 [Data set]. HJJB, LLC. Data release v2026-08-13. https://doi.org/10.5281/zenodo.21843040

From data release v2026-08-13, which the citation names so these numbers can be found later. More on citing and the projects behind them.

Report a problem with this page →