ITALICS: ITALICS
Version 2.36.0

A Method to normalize of Affymetrix GeneChip Human Mapping 100K and 500K set

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AuthorGuillem Rigaill, Philippe Hupe
Bioconductor views CopyNumberVariation Microarray
Date of publicationNone
MaintainerGuillem Rigaill <italics@curie.fr>
LicenseGPL-2
Version2.36.0
URL http://bioinfo.curie.fr
Package repositoryView on Bioconductor
InstallationInstall the latest version of this package by entering the following in R:
source("https://bioconductor.org/biocLite.R")
biocLite("ITALICS")

Man pages

GLAD.GLAD: GLAD analysis
ITALICSNew: Affymetrix SNP chip normalization
ITALICSTrain: ITALICS training
Model.GetConfDat: Elimination of badly predicted probes
Model.GetCorrection: Correction
Model.GetEffet: Effet
Model.GetModel: Regression Model
Model.GetResidu: Correction
New.AddInfo: add info to quartet annotation
New.fromQuartetToSnp: Compute the copy number of each SNP from its quartets...
New.fromSnpToQuartet: Function to get from snp to quartet
New.getQuartet: Function to retrieve the information of each quartet
New.getSnpInfo: Function to retrieve the chromosome and the position of each...
New.readQuartetCopyNb: Read PM probes of selected quartets and compute the quartet...

Functions

ITALICS Man page Source code
Italics Man page
addInfo Man page Man page Man page Source code
analyseCGH Man page Source code
fromQuartetToSnp Man page Man page Man page Source code
fromSnpToQuartet Man page Man page Man page Source code
getConfDat Man page Source code
getCorrection Man page Source code
getEffet Man page Source code
getModel Man page Source code
getQuartet Man page Man page Man page Source code
getResidu Man page Source code
getSnpInfo Man page Man page Man page Source code
italics Man page
onAttach Source code
readQuartetCopyNb Man page Man page Man page Source code
trainITALICS Man page Source code
trainItalics Man page
trainitalics Man page

Files

CHANGELOG
DESCRIPTION
NAMESPACE
R
R/GLAD.GLAD.R
R/ITALICSNew.R
R/ITALICSTrain.R
R/Model.getCorrection.R
R/Model.getModel.R
R/New.AddInfo.R
R/New.FromQuartetToSnp.R
R/New.GetSnpInfo.R
R/New.ReadQuartetCopyNb.R
R/New.fromSnpToQuartet.R
R/New.getQuartet.R
R/zzz.R
build
build/vignette.rds
inst
inst/doc
inst/doc/ITALICS.R
inst/doc/ITALICS.Rnw
inst/doc/ITALICS.pdf
inst/scripts
inst/scripts/tmp_filterBkp2.R
inst/scripts/tmp_filterBkpStep2.R
man
man/GLAD.GLAD.Rd
man/ITALICSNew.Rd
man/ITALICSTrain.Rd
man/Model.GetConfDat.Rd
man/Model.GetCorrection.Rd
man/Model.GetEffet.Rd
man/Model.GetModel.Rd
man/Model.GetResidu.Rd
man/New.AddInfo.Rd
man/New.fromQuartetToSnp.Rd
man/New.fromSnpToQuartet.Rd
man/New.getQuartet.Rd
man/New.getSnpInfo.Rd
man/New.readQuartetCopyNb.Rd
vignettes
vignettes/Bkp.jpeg
vignettes/ITALICS-006.eps
vignettes/ITALICS-006.pdf
vignettes/ITALICS.Rnw
vignettes/biblio.bib
ITALICS documentation built on May 20, 2017, 10:06 p.m.