CGHcall: Calling aberrations for array CGH tumor profiles.

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Calls aberrations for array CGH data using a six state mixture model as well as several biological concepts that are ignored by existing algorithms. Visualization of profiles is also provided.

Author
Mark van de Wiel, Sjoerd Vosse
Date of publication
None
Maintainer
Mark van de Wiel <mark.vdwiel@vumc.nl>
License
GPL (http://www.gnu.org/copyleft/gpl.html)
Version
2.36.0

View on Bioconductor

Man pages

CGHcall
Calling aberrations for array CGH tumor profiles.
CGHcall-package
Calling aberrations for array CGH tumor profiles.
ExpandCGHcall
Expands result fron CGHcall to CGHcall object.
normalize
Normalization and cellularity adjustment for arrayCGH data.
postsegnormalize
Post-segmentation normalization
preprocess
Preprocess arrayCGH data
segmentData
Breakpoint detection for arrayCGH data.
Wilting
Cervical cancer arrayCGH data

Files in this package

CGHcall/DESCRIPTION
CGHcall/NAMESPACE
CGHcall/R
CGHcall/R/CGHcall.R
CGHcall/R/preprocess.R
CGHcall/R/private.R
CGHcall/build
CGHcall/build/vignette.rds
CGHcall/data
CGHcall/data/Wilting.txt
CGHcall/inst
CGHcall/inst/doc
CGHcall/inst/doc/CGHcall.R
CGHcall/inst/doc/CGHcall.Rnw
CGHcall/inst/doc/CGHcall.pdf
CGHcall/man
CGHcall/man/CGHcall-package.Rd
CGHcall/man/CGHcall.Rd
CGHcall/man/ExpandCGHcall.Rd
CGHcall/man/Wilting.Rd
CGHcall/man/normalize.Rd
CGHcall/man/postsegnormalize.Rd
CGHcall/man/preprocess.Rd
CGHcall/man/segmentData.Rd
CGHcall/vignettes
CGHcall/vignettes/CGHcall.Rnw
CGHcall/vignettes/CGHcall.bib