R Observatory: Metrics for RClone version 1.0.3

Balamuta, James Joseph

This package was removed from CRAN on 2022-03-09. Its history is shown below.

Reason: check problems were not corrected in time

Details below reflect version 1.0.3, its last release before removal.

RClone

1.0.3

Partially Clonal Populations Analysis

0packages depend

–downloads / year

–test coverage

–checks pass

Overview

About

Maintained by Diane Bailleul3 releasesCRAN page ↗GitHub ↗

R version of 'GenClone' (a computer program to analyse genotypic data, test for clonality and describe spatial clonal organization, Arnaud-Haond & Belkhir 2007, https://wwz.ifremer.fr/clonix/content/download/68205/903914/file/GenClone2.0.setup.zip), this package allows clone handling as 'GenClone' does, plus the possibility to work with several populations, MultiLocus Lineages (MLL) custom definition and use, and p-value calculation for psex statistic (probability of originating from distinct sexual events) and psex_Fis statistic (taking account of Hardy-Weinberg equilibrium departure) as 'MLGsim'/'MLGsim2' (a program for detecting clones using a simulation approach, Stenberg et al. 2003).

Install

R (source archive)pak (dev)openSUSE (OBS)

url <- "https://cran.r-project.org/src/contrib/Archive/RClone/RClone_1.0.3.tar.gz"
pkgFile <- "RClone_1.0.3.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 (1.0.3) 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("dbailleul/RClone")

Development version from dbailleul/RClone. Installs pak first if it is not already available.

# 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-RClone

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

Health

CRAN checks

CRAN check results are not tracked yet.

Code health

Yes

Tests · ratio 2.16

not tracked

Coverage

6

Dependencies · direct

Documentation

READMEYes · 156 wordsVignettesYes · dynamicpkgdown siteNoNEWSNoCode of conductNoContributing guideNo

Examples that run: 100%
Documented parameters: not tracked
Return-value docs: not tracked
References docs: 86%

Downloads

Releases R versions

Daily download trend is not available in this view yet.

Compare downloads with other packages →

Also on6 autocran1.2K conda_forge

Dependencies

Declared dependencies

4 external dependencies (excludes base and recommended)

Depends (7)

R >= 3.2.0graphicsstatsgrDevicesutilsdatasetsmethods

Imports (0)

none

LinkingTo (0)

none

Suggests (4)

knitr rmarkdown pander testthat

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

–indirect (not tracked)

Nothing depends on this yet.

Code & Tests

Datasets

People & History

People (3)

Maintainer (1)

Diane Bailleul

Author, Maintainer

Authors (2)

Diane Bailleul

Author, Maintainer

Sophie Arnaud-Haond

Author

Contributors (1)

Solenn Stoeckel

Contributor · added in 1.0.2

Listed in earlier versions (1)

CLONIX

no longer listed · 1.0

Package Timeline

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

R
R 4.2.0 released · 2022-04-22
archivedRemoved from CRAN
2022-03-09
check problems were not corrected in time
R
R 4.1.0 released · 2021-05-18
1.0.3
2021-05-15 · diff ↗
R
R 4.0.0 released · 2020-04-24
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
1.0.2
2016-06-06 · diff ↗
R
R 3.3.0 released · 2016-05-03
1.0
2015-10-23
R
R 3.2.0 released · 2015-04-16

Package metadata

Total releases: 3
License: GPL (>= 2.0)
Minimum R: ≥ 3.2.0
Bundled data: 2.8 MB / 8 files
Download size: not tracked yet
Installed size: not tracked yet
With dependencies: not tracked yet

Cite

Cite this package

Start here. This is the citation for the package itself.

citation("RClone")

A package removed from CRAN has no DOI on this scheme. See its archive page on CRAN, or run citation() on an installed copy.

BibTeX, derived from DESCRIPTION

@Manual{RClone,
  title  = {RClone: Partially Clonal Populations Analysis},
  author = {Arnaud-Haond, Sophie and Bailleul, Diane and Stoeckel, Solenn},
  note   = {R package version 1.0.3},
  url    = {https://CRAN.R-project.org/package=RClone}
}

Derived from the package DESCRIPTION, not from a citation file the authors wrote. If they publish one later, prefer it.

This is the citation for the package. It is not a citation for the R Observatory.

Cite this page

Use this when the claim is about a measurement on this page.

BibTeX

@misc{robservatoryRClone,
  author    = {Balamuta, James Joseph},
  title     = {{R} {Observatory}: Metrics for {RClone} version 1.0.3},
  year      = {2026},
  publisher = {HJJB, LLC},
  url       = {https://r-observatory.thecoatlessprofessor.com/packages/RClone},
  note      = {Data set. Data release v2026-08-05}
}

APA

Balamuta, J. J. (2026). R Observatory: Metrics for RClone version 1.0.3 [Data set]. HJJB, LLC. Data release v2026-08-05. https://r-observatory.thecoatlessprofessor.com/packages/RClone

RIS

TY  - DATA
AU  - Balamuta, James Joseph
TI  - R Observatory: Metrics for RClone version 1.0.3
PY  - 2026
PB  - HJJB, LLC
N1  - Data release v2026-08-05
UR  - https://r-observatory.thecoatlessprofessor.com/packages/RClone
ER  -

In prose

These package metrics were obtained from the R Observatory (Balamuta, 2026), data release v2026-08-05, https://r-observatory.thecoatlessprofessor.com/packages/RClone.

Bound to data release v2026-08-05, which is what makes the numbers on this page reproducible. See how to cite.

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