CGHnormaliter: Normalization of array CGH data with imbalanced aberrations.
Version 1.30.0

Normalization and centralization of array comparative genomic hybridization (aCGH) data. The algorithm uses an iterative procedure that effectively eliminates the influence of imbalanced copy numbers. This leads to a more reliable assessment of copy number alterations (CNAs).

Browse man pages Browse package API and functions Browse package files

AuthorBart P.P. van Houte, Thomas W. Binsl, Hannes Hettling
Bioconductor views Microarray Preprocessing
Date of publicationNone
MaintainerBart P.P. van Houte <bvhoute@few.vu.nl>
LicenseGPL (>= 3)
Version1.30.0
Package repositoryView on Bioconductor
InstallationInstall the latest version of this package by entering the following in R:
source("https://bioconductor.org/biocLite.R")
biocLite("CGHnormaliter")

Man pages

CGHnormaliter: Iterative normalization of aCGH data
CGHnormaliter-internal: Internal CGHnormaliter functions
CGHnormaliter-package: This package implements the CGHnormaliter algorithm which is...
CGHnormaliter.write.table: Print normalized aCGH data to a file
Leukemia: Array CGH experiment data on childhood acute lymphoblastic...

Functions

.calculateMA Man page
.localLowess Man page
.plotMA Man page
.readCghRaw Man page
.runCGHcall Man page
CGHnormaliter Man page Source code
CGHnormaliter-package Man page
CGHnormaliter.write.table Man page Source code
Leukemia Man page
calculateMA Source code
localLowess Source code
plotMA Source code
readCghRaw Source code
runCGHcall Source code

Files

DESCRIPTION
NAMESPACE
R
R/CGHnormaliter-internal.R
R/CGHnormaliter.R
build
build/vignette.rds
data
data/Leukemia.txt
data/datalist
inst
inst/doc
inst/doc/CGHnormaliter.R
inst/doc/CGHnormaliter.Rnw
inst/doc/CGHnormaliter.pdf
man
man/CGHnormaliter-internal.Rd
man/CGHnormaliter-package.Rd
man/CGHnormaliter.Rd
man/CGHnormaliter.write.table.Rd
man/Leukemia.Rd
vignettes
vignettes/CGHnormaliter-method.pdf
vignettes/CGHnormaliter.Rnw
vignettes/CGHnormaliter.bib
CGHnormaliter documentation built on May 20, 2017, 9:28 p.m.