GLAD: Gain and Loss Analysis of DNA

Share:

Analysis of array CGH data : detection of breakpoints in genomic profiles and assignment of a status (gain, normal or loss) to each chromosomal regions identified.

Author
Philippe Hupe
Date of publication
None
Maintainer
Philippe Hupe <glad@curie.fr>
License
GPL-2
Version
2.38.0
URLs

View on Bioconductor

Man pages

arrayCGH
Object of Class arrayCGH
arrayPersp
Perspective image of microarray spots statistic
arrayPlot
Spatial image of microarray spots statistic
as.data.frame.profileCGH
profileCGH consercion
as.profileCGH
Create an object of class profileCGH
bladder
Bladder cancer CGH data
ChrNumeric
Convert chromosome into numeric values
ColorBar
Calibration bar for color images
cytoband
Cytogenetic banding
daglad
Analysis of array CGH data
glad
Analysis of array CGH data
GLAD-internal
GLAD-internal
hclust
Hierarchical Clustering
kernel
Kernelpen function
myPalette
Microarray color palette
plotProfile
Plot genomic profile and cytogenetic banding
profileCGH
Objects of Class profileCGH and profileChr
snijders
Public CGH data of Snijders
tkdaglad
Graphical interface for GLAD package
veltman
Public CGH data of Veltman

Files in this package

GLAD/CHANGELOG
GLAD/DESCRIPTION
GLAD/NAMESPACE
GLAD/R
GLAD/R/BkpInfo.R
GLAD/R/CheckData.R
GLAD/R/ChrNumeric.R
GLAD/R/HaarSeg.R
GLAD/R/MoveBkp.R
GLAD/R/MoveBkpStep.R
GLAD/R/OutliersGNL.R
GLAD/R/affectationGNL.R
GLAD/R/arrayPlot.R
GLAD/R/as.profileCGH.R
GLAD/R/chrBreakpoints.R
GLAD/R/daglad.R
GLAD/R/detectOutliers.R
GLAD/R/filterBkp.R
GLAD/R/filterBkpStep.R
GLAD/R/findCluster.R
GLAD/R/glad.R
GLAD/R/hclust.R
GLAD/R/kernel.R
GLAD/R/laws-glad.R
GLAD/R/loopRemove.R
GLAD/R/plotCytoBand.R
GLAD/R/plotProfile.R
GLAD/R/tkdaglad.R
GLAD/R/tkglad.R
GLAD/R/zzz.R
GLAD/aclocal.m4
GLAD/build
GLAD/build/vignette.rds
GLAD/cleanup
GLAD/configure
GLAD/configure.ac
GLAD/configure.ac.old
GLAD/data
GLAD/data/arrayCGH.RData
GLAD/data/cytoband.RData
GLAD/data/snijders.RData
GLAD/data/veltman.RData
GLAD/demo
GLAD/demo/00Index
GLAD/demo/tkdaglad.R
GLAD/demo/tkglad.R
GLAD/inst
GLAD/inst/README
GLAD/inst/doc
GLAD/inst/doc/GLAD.R
GLAD/inst/doc/GLAD.Rnw
GLAD/inst/doc/GLAD.pdf
GLAD/man
GLAD/man/ChrNumeric.Rd
GLAD/man/ColorBar.Rd
GLAD/man/GLAD-internal.Rd
GLAD/man/arrayCGH.Rd
GLAD/man/arrayPersp.Rd
GLAD/man/arrayPlot.Rd
GLAD/man/as.data.frame.profileCGH.Rd
GLAD/man/as.profileCGH.Rd
GLAD/man/bladder.Rd
GLAD/man/cytoband.Rd
GLAD/man/daglad.Rd
GLAD/man/glad.Rd
GLAD/man/hclust.Rd
GLAD/man/kernel.Rd
GLAD/man/myPalette.Rd
GLAD/man/plotProfile.Rd
GLAD/man/profileCGH.Rd
GLAD/man/snijders.Rd
GLAD/man/tkdaglad.Rd
GLAD/man/veltman.Rd
GLAD/src
GLAD/src/BkpInfo.cpp
GLAD/src/HaarSeg.cpp
GLAD/src/HaarSeg.h
GLAD/src/Makevars.in
GLAD/src/Makevars.win
GLAD/src/MoveBkp.cpp
GLAD/src/MoveBkp.h
GLAD/src/OutliersGNL.cpp
GLAD/src/chrBreakpoints.cpp
GLAD/src/chrBreakpoints.h
GLAD/src/cutree.cpp
GLAD/src/cutree.h
GLAD/src/daglad.cpp
GLAD/src/distance.cpp
GLAD/src/filterBkp.cpp
GLAD/src/filterBkp.h
GLAD/src/findCluster.cpp
GLAD/src/findCluster.h
GLAD/src/glad-limits.h
GLAD/src/glad-struct.h
GLAD/src/glad-utils.cpp
GLAD/src/glad-utils.h
GLAD/src/hclust.cpp
GLAD/src/laws.c
GLAD/src/laws.h
GLAD/src/loopRemove.cpp
GLAD/src/loopRemove.h
GLAD/src/mva.h
GLAD/vignettes
GLAD/vignettes/GLAD.Rnw
GLAD/vignettes/biblio.bib