CNTools: Convert segment data into a region by sample matrix to allow for other high level computational analyses.

This package provides tools to convert the output of segmentation analysis using DNAcopy to a matrix structure with overlapping segments as rows and samples as columns so that other computational analyses can be applied to segmented data

AuthorJianhua Zhang
Date of publicationNone
MaintainerJ. Zhang <jzhang@jimmy.harvard.edu>
LicenseLGPL
Version1.30.0

View on Bioconductor

Functions

CNSeg Man page
CNSeg-class Man page
diffBy Man page
diffBy,ANY-method Man page
diffBy-method Man page
diffBy,RS-method Man page
genefilter-methods Man page
genefilter,RS-method Man page
geneInfo Man page
getCor Man page
getCor,ANY-method Man page
getCor-method Man page
getCor,RS-method Man page
getDist Man page
getDist,ANY-method Man page
getDist-method Man page
getDist,RS-method Man page
getRS Man page
getRS,CNSeg-method Man page
getRS-method Man page
madFilter Man page
madFilter,ANY-method Man page
madFilter-method Man page
madFilter,RS-method Man page
rs Man page
rs<- Man page
RS-class Man page
rs<-,RS-method Man page
rs,RS-method Man page
sampleData Man page
segBy Man page
segBy,RS-method Man page
segList Man page
segList<- Man page
segList<-,CNSeg-method Man page
segList,CNSeg-method Man page
segList-method Man page
show,CNSeg-method Man page
show,RS-method Man page

Files

CNTools/DESCRIPTION
CNTools/NAMESPACE
CNTools/R
CNTools/R/ClassDefination.R CNTools/R/SupportingFunctions.R CNTools/R/zzz.R
CNTools/build
CNTools/build/vignette.rds
CNTools/data
CNTools/data/geneInfo.rda
CNTools/data/sampleData.rda
CNTools/inst
CNTools/inst/doc
CNTools/inst/doc/HowTo.R
CNTools/inst/doc/HowTo.Rnw
CNTools/inst/doc/HowTo.pdf
CNTools/man
CNTools/man/CNSeg-class.Rd CNTools/man/RS-class.Rd CNTools/man/cor-methods.Rd CNTools/man/diffBy-methods.Rd CNTools/man/dist-methods.Rd CNTools/man/genefilter-methods.Rd CNTools/man/getRS-methods.Rd CNTools/man/madFilter-methods.Rd
CNTools/src
CNTools/src/getratios.c
CNTools/vignettes
CNTools/vignettes/HowTo.Rnw
CNTools/vignettes/fig01.png
CNTools/vignettes/fig02.png

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

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

All documentation is copyright its authors; we didn't write any of that.