cghseg: Segmentation methods for array CGH analysis

cghseg is an R package dedicated to the analysis of CGH profiles using segmentation models.

Author
Franck Picard, Mark Hoebeke, Emilie Lebarbier, Vincent Miele, Guillem Rigaill, Stephane Robin
Date of publication
2013-01-03 15:05:30
Maintainer
Franck Picard <franck.picard@univ-lyon1.fr>
License
GPL ( >= 2)
Version
1.0.1

View on R-Forge

Man pages

alpha
Replace slot alpha
beta
Replace slot beta
calling
Replace slot calling
CGHdata-class
Class "CGHdata"
CGHoptions-class
Class "CGHoptions"
CGHresults-class
Class "CGHresults"
GCnorm
Replace slot GCnorm
getbgoutliers
getbgoutliers
getbp
Breakpoints frequencies
getlevels
Levels frequency
getmultiKmax
Determining the maximum number of segments for joint...
getsegprofiles
getsegprofiles
getuniKmax
Maximum number of segments per profile
itermax
Replace slot itermax
multiseg
Joint segmentation of multiple CGH profiles
nblevels
Replace slot nblevels
nbprocs
Replace slot nbprocs
select
Replace slot select
simulprofiles
simulprofiles
uniseg
Segmentation of univariate CGH profiles
wavenorm
Replace slot wavenorm

Files in this package

cghseg
cghseg/INDEX
cghseg/R
cghseg/R/DP2EM.R
cghseg/R/getmBIC.R
cghseg/R/unisegmean.R
cghseg/R/multiseg.R
cghseg/R/getuniKmax.R
cghseg/R/uniseg.R
cghseg/R/getbias.R
cghseg/R/PKselection.R
cghseg/R/CGHoptions.R
cghseg/R/multisegmixt.R
cghseg/R/ILSclust.R
cghseg/R/cghseg.R
cghseg/R/ILS.R
cghseg/R/zzz.R
cghseg/R/Kselection.R
cghseg/R/golden.search.R
cghseg/R/multisegclust.R
cghseg/R/simulprofiles.R
cghseg/R/getmultiKmax.R
cghseg/R/CGHdata.R
cghseg/R/unisegclust.R
cghseg/R/unisegmixt.R
cghseg/R/multisegmean.R
cghseg/R/CGHresults.R
cghseg/R/multisegout.R
cghseg/NAMESPACE
cghseg/DESCRIPTION
cghseg/man
cghseg/man/calling.Rd
cghseg/man/wavenorm.Rd
cghseg/man/multiseg.Rd
cghseg/man/CGHresults-class.Rd
cghseg/man/getuniKmax.Rd
cghseg/man/nbprocs.Rd
cghseg/man/CGHoptions-class.Rd
cghseg/man/getbgoutliers.Rd
cghseg/man/GCnorm.Rd
cghseg/man/beta.Rd
cghseg/man/getbp.Rd
cghseg/man/nblevels.Rd
cghseg/man/getlevels.Rd
cghseg/man/select.Rd
cghseg/man/uniseg.Rd
cghseg/man/getsegprofiles.Rd
cghseg/man/simulprofiles.Rd
cghseg/man/alpha.Rd
cghseg/man/CGHdata-class.Rd
cghseg/man/getmultiKmax.Rd
cghseg/man/itermax.Rd
cghseg/src
cghseg/src/lvinc.h
cghseg/src/Mstep.h
cghseg/src/Mstep.cc
cghseg/src/lvinc.cc
cghseg/src/helperfuncs.cc
cghseg/src/usefullReadAndWrite.cc
cghseg/src/accessToR.cc
cghseg/src/Segmentation_ibp.h
cghseg/src/hybrid.h
cghseg/src/Estep.h
cghseg/src/ApproxSeg.h
cghseg/src/helperfuncs.h
cghseg/src/usefullReadAndWrite.h
cghseg/src/conv_hull.cc
cghseg/src/ApproxSeg.c
cghseg/src/Segmentation_mixt.cc
cghseg/src/Rwrappers.h
cghseg/src/numlib.h
cghseg/src/compactEM_algo.cc
cghseg/src/Makevars
cghseg/src/Segmentation_ibp.cc
cghseg/src/repmat.cc
cghseg/src/colibri.cc
cghseg/src/liste.cc
cghseg/src/Segmentation_mixt.h
cghseg/src/compactEM_init_Reg.h
cghseg/src/cghseg_types.h
cghseg/src/Estep.cc
cghseg/src/EM_algo.h
cghseg/src/compactEM_init.h
cghseg/src/compactEM_init.cc
cghseg/src/compactEM_init_Reg.cc
cghseg/src/Segmentation_mean.h
cghseg/src/compactEM_algo.h
cghseg/src/repmat.h
cghseg/src/colibriAnalysis.cc
cghseg/src/numlib.cc
cghseg/src/liste.h
cghseg/src/EM_init.cc
cghseg/src/LinDynProg.cc
cghseg/src/Rwrappers.cc
cghseg/src/EM_algo.cc
cghseg/src/ApproxSeg_2.c
cghseg/src/neighbors.h
cghseg/src/logdens.h
cghseg/src/polynome2.h
cghseg/src/Segmentation_mean.cc
cghseg/src/logdens.cc
cghseg/src/hybrid.cc
cghseg/src/colibri.h
cghseg/src/EM_init.h
cghseg/src/conv_hull.h
cghseg/src/LinDynProgMelange.cc
cghseg/src/neighbors.cc