R Observatory: Metrics for cpgen version 0.1

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

This package was removed from CRAN on 2019-07-02. Its history is shown below.

Reason: misuse of package= for PACKAGE= was not corrected despite reminder

Details below reflect version 0.1, its last release before removal.

cpgen

0.1

Parallelized Genomic Prediction and GWAS

0packages depend

–downloads / year

–test coverage

–checks pass

Overview

About

Maintained by Claas Heuer1 releasesCRAN page ↗GitHub ↗

Frequently used methods in genomic applications with emphasis on parallel computing (OpenMP). At its core, the package has a Gibbs Sampler that allows running univariate linear mixed models that have both, sparse and dense design matrices. The parallel sampling method in case of dense design matrices (e.g. Genotypes) allows running Ridge Regression or BayesA for a very large number of individuals. The Gibbs Sampler is capable of running Single Step Genomic Prediction models. In addition, the package offers parallelized functions for common tasks like genome-wide association studies and cross validation in a memory efficient way.

Install

R (source archive)pak (dev)

url <- "https://cran.r-project.org/src/contrib/Archive/cpgen/cpgen_0.1.tar.gz"
pkgFile <- "cpgen_0.1.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 (0.1) and builds it locally. Install its dependencies first, and note that building from source needs the usual compiler toolchain.

if (!requireNamespace("pak", quietly = TRUE))
  install.packages("pak", repos = "https://cloud.r-project.org/")
pak::pak("cheuerde/cpgen")

Development version from cheuerde/cpgen. Installs pak first if it is not already available.

Health

CRAN checks

CRAN check results are not tracked yet.

Code health

None

Tests · ratio 0.00

not tracked

Coverage

92%

Documentation · exports

4

Dependencies · direct

Documentation

READMENoVignettesNopkgdown siteNoNEWSNoCode of conductNoContributing guideNo

Examples that run: 58%
Documented parameters: 100%
Return-value docs: 100%
References docs: 36%

Downloads

cpgen Releases R versions

Daily download trend is not available in this view yet.

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Dependencies

Declared dependencies

4 external dependencies (excludes base and recommended)

Depends (3)

R >= 3.1.0Matrixpedigreemm

Imports (2)

methodsstats

LinkingTo (3)

Rcpp RcppEigen RcppProgress

Suggests (0)

none

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)

Claas Heuer

Contributor

Package Timeline

1 release. R releases are shown for context.

R
R 4.0.0 released · 2020-04-24
archivedRemoved from CRAN
2019-07-02
misuse of package= for PACKAGE= was not corrected despite reminder
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
0.1
2015-09-15
R
R 3.2.0 released · 2015-04-16

Package metadata

Total releases: 1
License: GPL (>= 2) OSI
Minimum R: ≥ 3.1.0
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("cpgen")

Format

Heuer, C. (n.d.). cpgen: Parallelized Genomic Prediction and GWAS (Version 0.1) [Computer software]. Retrieved August 13, 2026, from https://CRAN.R-project.org/package=cpgen

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 cpgen version 0.1 [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.

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