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.

Author
J. Zhang and B. Feng
Date of publication
None
Maintainer
J. Zhang <jzhang@jimmy.harvard.edu>
License
LGPL
Version
1.32.0

View on Bioconductor

Man pages

cghMCR
The constructor for the cghMCR class
cghMCR-class
Class "cghMCR" is a S4 class for the identification of...
mergeMCRProbes
A function that appends probe ids to a data frame containing...
methods
Methods for Function colnames/rownames in Package 'cghMCR'
plot.DNAcopy
A function to plot the original data along with the segments...
SGOL-class
Class "SGOL" reprents segments of gain or loss across samples

Files in this package

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