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.

Install the latest version of this package by entering the following in R:
source("https://bioconductor.org/biocLite.R")
biocLite("cghMCR")
AuthorJ. Zhang and B. Feng
Bioconductor views CopyNumberVariation Microarray
Date of publicationNone
MaintainerJ. Zhang <jzhang@jimmy.harvard.edu>
LicenseLGPL
Version1.32.0

View on Bioconductor

Functions

cghMCR Man page
cghMCR-class Man page
colnames-methods Man page
colnames,SGOL-method Man page
getSegments Man page
getSegments,marrayNorm-method Man page
getSegments,marrayRaw-method Man page
gol Man page
gol,SGOL-method Man page
MCR Man page
MCR,cghMCR-method Man page
mergeMCRProbes Man page
[-methods Man page
method,SGOL-method Man page
plot Man page
plot,ANY-method Man page
plot.DNAcopy Man page
plot,methods Man page
plot,SGOL,ANY-method Man page
plot,SGOL-method Man page
rownames-methods Man page
rownames,SGOL-method Man page
segData Man page
SGOL Man page
SGOL-class Man page
[,SGOL-method Man page
threshold,SGOL-method Man page

Files

DESCRIPTION
NAMESPACE
NAMESPACEBACK
R
R/cghMCR.R R/mcrFunctions.R
build
build/vignette.rds
data
data/segData.rda
inst
inst/doc
inst/doc/findMCR.R
inst/doc/findMCR.Rnw
inst/doc/findMCR.pdf
inst/sampleData
inst/sampleData/TCGA-06-0881-01A-02D-0387-02-short.txt
inst/sampleData/TCGA-12-0818-01A-01D-0387-02-short.txt
inst/sampleData/TCGA-12-0827-01A-01D-0387-02-short.txt
man
man/SGOL-class.Rd man/cghMCR-class.Rd man/cghMCR.Rd man/mergeMCRProbes.Rd man/methods.Rd man/plot.DNAcopy.Rd
vignettes
vignettes/findMCR.Rnw
vignettes/segplot.eps
vignettes/segplot.png
vignettes/sgolPlot.eps
vignettes/sgolPlot.png

Questions? Problems? Suggestions? or email at ian@mutexlabs.com.

Please suggest features or report bugs with the GitHub issue tracker.

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