Package: cghMCR 1.70.0

J. Zhang

cghMCR: Find chromosome regions showing common gains/losses

This package provides functions to identify genomic regions of interests based on segmented copy number data from multiple samples.

Authors:J. Zhang and B. Feng

cghMCR_1.70.0.tar.gz
cghMCR_1.70.0.zip(r-4.7)cghMCR_1.70.0.zip(r-4.6)cghMCR_1.70.0.zip(r-4.5)
cghMCR_1.70.0.tgz(r-4.6-any)cghMCR_1.70.0.tgz(r-4.5-any)
cghMCR_1.70.0.tar.gz(r-4.7-any)cghMCR_1.70.0.tar.gz(r-4.6-any)
cghMCR_1.70.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
card.svg |card.png
cghMCR/json (API)

# Install 'cghMCR' in R:
install.packages('cghMCR', repos = c('https://bioc-release.r-universe.dev', 'https://cloud.r-project.org'))
Datasets:
  • segData - The constructor for the cghMCR class

On BioConductor:cghMCR-1.71.0(bioc 3.24)cghMCR-1.70.0(bioc 3.23)

This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.

microarraycopynumbervariation

4.30 score 2 scripts 579 downloads 15 mentions 7 exports 48 dependencies

Last updated from:e1b9e56e89 (on RELEASE_3_23). Checks:1 ERROR, 7 WARNING, 2 OK. Indexed: no.

TargetResultTimeFilesSyslog
bioc-checksERROR164
linux-devel-x86_64WARNING236
source / vignettesOK271
linux-release-x86_64WARNING276
macos-release-arm64WARNING158
macos-oldrel-arm64WARNING206
windows-develWARNING178
windows-releaseWARNING176
windows-oldrelWARNING202
wasm-releaseOK149

Exports:cghMCRgolMCRmergeMCRProbesplotplot.DNAcopySGOL

Dependencies:annotateAnnotationDbiaskpassBiobaseBiocGenericsBiostringsbitbit64blobcachemcliCNToolscpp11crayoncurlDBIDNAcopyfastmapgenefiltergenericsgluehttrIRangesjsonliteKEGGRESTlatticelifecyclelimmaMatrixMatrixGenericsmatrixStatsmemoisemimeopensslpkgconfigpngR6rlangRSQLiteS4VectorsSeqinfostatmodsurvivalsysvctrsXMLxtableXVector

cghMCR findMCR

Rendered fromfindMCR.Rnwusingutils::Sweaveon Jun 15 2026.

Last update: 2013-11-01
Started: 2013-11-01

Readme and manuals

Help Manual

Help pageTopics
The constructor for the cghMCR classcghMCR segData
Class "cghMCR" is a S4 class for the identification of minimum common regions of gains or losses across samplescghMCR-class getSegments getSegments,marrayNorm-method getSegments,marrayRaw-method MCR MCR,cghMCR-method
Methods for Function colnames/rownames in Package `cghMCR'colnames,SGOL-method colnames-methods rownames,SGOL-method rownames-methods [,SGOL-method [-methods
A function that appends probe ids to a data frame containing MCRsmergeMCRProbes
A function to plot the original data along with the segments identified using segment of DNAcopy.plot.DNAcopy
Class "SGOL" reprents segments of gain or loss across samplesgol gol,SGOL-method method,SGOL-method plot plot,ANY-method plot,methods plot,SGOL,ANY-method plot,SGOL-method SGOL SGOL-class threshold,SGOL-method