R Observatory: Metrics for RJaCGH version 2.0.4

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

This package was removed from CRAN on 2020-01-14. Its history is shown below.

Reason: check errors were not corrected in time. Detritus with variable names

Details below reflect version 2.0.4, its last release before removal.

RJaCGH

2.0.4Package record

Reversible Jump MCMC for the Analysis of CGH Arrays

0packages depend

–downloads / year

–test coverage

–flavors OK

Overview

About

Maintained by Oscar RuedaCRAN page ↗

Bayesian analysis of CGH microarrays fitting Hidden Markov Chain models. The selection of the number of states is made via their posterior probability computed by Reversible Jump Markov Chain Monte Carlo Methods. Also returns probabilistic common regions for gains/losses.

Install

R (source archive)

url <- "https://cran.r-project.org/src/contrib/Archive/RJaCGH/RJaCGH_2.0.4.tar.gz"
pkgFile <- "RJaCGH_2.0.4.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 (2.0.4) and builds it locally. Install its dependencies first, and note that building from source needs the usual compiler toolchain.

Health

CRAN checks

CRAN check results are not tracked yet.

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 2.0.4

READMENoVignettesNoNEWSNoCitation fileNoWebsitenot declared in DESCRIPTION

Help pages: 20
Examples that run: 85%17 run in a plain check · 3 never run
Exported functions with examples: 100%
Documented parameters: 100%
Return-value docs: 100%
Help pages citing references: 100%

How these are measured

Downloads

RJaCGH Releases R versions

Daily download trend is not available in this view yet.

Compare downloads with other packages →

Also on157 c2d4u

How downloads are counted

Dependencies

Declared dependencies

0 external dependencies (excludes base and recommended)

Depends (1)

R >= 2.13

Imports (0)

none

LinkingTo (0)

none

Suggests (0)

none

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

–indirect (not tracked)

Nothing depends on this yet.

How these are counted

Code & Tests

Datasets

People & History

People (4)

Oscar Rueda

Contributor · added in 1.5.3

Ramon Diaz-Uriarte. zlib from Jean-loup Gailly

Contributor · added in 1.5.3

Mark Adler

Contributor · added in 1.5.3

Henrik Bengtsson.

Contributor · added in 1.5.3

Maintainer since 0.3 (2006)

Listed in earlier versions (4)

Show 4 peopleHide 4 people

Ramon Diaz-Uriarte

no longer listed · 0.3 to 1.2.5

es

no longer listed · 0.3 to 1.2.5

Oscar Rueda omrueda@cnio

no longer listed · 0.3 to 1.2.5

Oscar M. Rueda omrueda@cnio

no longer listed · 0.5.1

Releases (23)

Pick two releases to compare their code metrics.

R
R 4.0.0 released · 2020-04-24
archivedRemoved from CRAN
2020-01-14
check errors were not corrected in time Detritus with variable names
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
2.0.4
record
2015-07-06 · diff ↗ ·
removed 2 exports
Q.NH, plot.Q.NH

added 2 exports
QNH, plotQNH
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
R
R 2.15.0 released · 2012-03-30
R
R 2.14.0 released · 2011-10-31
2.0.3
record
2011-10-10 · diff ↗
2.0.2
record
2011-10-10 · diff ↗
R
R 2.13.0 released · 2011-04-13
2.0.1
record
2011-03-21 · diff ↗

Show 29 earlier eventsHide 29 earlier events

R
R 2.12.0 released · 2010-10-15
R
R 2.11.0 released · 2010-04-22
R
R 2.10.0 released · 2009-10-26
R
R 2.9.0 released · 2009-04-17
2.0.0
record
2009-03-04 · diff ↗ ·
removed 5 exports
gelman.rubin.plot, model.averaging, collapseChain, chainsSelect, genome.plot

added 2 exports
modelAveraging, genomePlot
1.5.7
record
2008-10-22 · diff ↗
R
R 2.8.0 released · 2008-10-20
1.5.6
record
2008-10-10 · diff ↗
1.5.5
record
2008-09-11 · diff ↗
1.5.4
record
2008-06-27 · diff ↗
1.5.3
record
2008-06-27 · diff ↗ ·
removed 1 export
gelman.brooks.plot

added 1 export
gelman.rubin.plot
1.2.5
record
2008-04-22 · diff ↗
R
R 2.7.0 released · 2008-04-22
1.2.4
record
2008-04-01 · diff ↗
1.2.2
record
2008-02-28 · diff ↗
1.2.1
record
2008-01-14 · diff ↗
1.2.0
record
2007-12-07 · diff ↗ ·
removed 1 export
pMCR

added 4 exports
pREC_A, pREC_S, relabelStates, smoothMeans
R
R 2.6.0 released · 2007-10-03
1.1.1
record
2007-05-07 · diff ↗
R
R 2.5.0 released · 2007-04-24
1.0.2
record
2007-04-19 · diff ↗
1.0.1
record
2007-01-22 · diff ↗
1.0.0
record
2006-11-06 · diff ↗ ·
added 2 exports
pMCR, genome.plot
0.5.1
record
2006-11-06 · diff ↗
0.5
record
2006-11-06 · diff ↗ ·
added 1 export
chainsSelect
R
R 2.4.0 released · 2006-10-03
0.4
record
2006-07-14 · diff ↗
0.3
record
2006-07-14
R
R 2.3.0 released · 2006-04-24

Package metadata

First published: 2006-07-14
Total releases: 23 / 20 yrs
License: GPL-3 OSI
Minimum R: ≥ 2.13
Bundled data: 185 KB / 1 file

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("RJaCGH")

Format

Rueda, O., Gailly, R. D. z. f. J., Adler, M., & Bengtsson., H. (n.d.). RJaCGH: Reversible Jump MCMC for the Analysis of CGH Arrays (Version 2.0.4) [Computer software]. Retrieved October 26, 2026, from https://CRAN.R-project.org/package=RJaCGH

This package has no citation file, so citation() returns this entry built from DESCRIPTION.

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 RJaCGH version 2.0.4 [Data set]. HJJB, LLC. Data release v2026-10-25. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-25, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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