cghseg: Segmentation methods for array CGH analysis

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

AuthorFranck Picard, Mark Hoebeke, Emilie Lebarbier, Vincent Miele, Guillem Rigaill, Stephane Robin
Date of publication2013-01-03 15:05:30
MaintainerFranck Picard <franck.picard@univ-lyon1.fr>
LicenseGPL ( >= 2)
Version1.0.1

View on R-Forge

Functions

alpha<- Man page
alpha<-,CGHoptions-method Man page
alpha<--methods Man page
beta<- Man page
beta<-,CGHoptions-method Man page
beta<--methods Man page
calling<- Man page
calling<-,CGHoptions-method Man page
calling<--methods Man page
CGHdata-class Man page
[,CGHdata-method Man page
CGHoptions-class Man page
[,CGHoptions-method Man page
CGHresults-class Man page
[,CGHresults-method Man page
GCnorm<- Man page
GCnorm<-,CGHoptions-method Man page
GCnorm<--methods Man page
getbgoutliers Man page
getbgoutliers,CGHresults-method Man page
getbgoutliers-methods Man page
getbp Man page
getbp,CGHresults-method Man page
getbp-methods Man page
getlevels Man page
getlevels,CGHresults-method Man page
getlevels-methods Man page
getmultiKmax Man page
getmultiKmax,CGHdata-method Man page
getmultiKmax-methods Man page
getprobebias,CGHresults-method Man page
getsegprofiles Man page
getsegprofiles,CGHresults-method Man page
getsegprofiles-methods Man page
getuniKmax Man page
getuniKmax,CGHdata-method Man page
getuniKmax-methods Man page
initialize,CGHdata-method Man page
initialize,CGHresults-method Man page
itermax<- Man page
itermax<-,CGHoptions-method Man page
itermax<--methods Man page
multiseg Man page
multiseg,CGHdata-method Man page
multiseg-methods Man page
nblevels<- Man page
nblevels<-,CGHoptions-method Man page
nblevels<--methods Man page
nbprocs<- Man page
nbprocs<-,CGHoptions-method Man page
nbprocs<--methods Man page
print,CGHdata-method Man page
print,CGHoptions-method Man page
select<- Man page
select<-,CGHoptions-method Man page
select<--methods Man page
show,CGHdata-method Man page
show,CGHoptions-method Man page
simulprofiles Man page
summary,CGHdata-method Man page
summary,CGHresults-method Man page
uniseg Man page
uniseg,CGHdata-method Man page
uniseg-methods Man page
wavenorm<- Man page
wavenorm<-,CGHoptions-method Man page
wavenorm<--methods Man page

Files

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

Questions? Problems? Suggestions? or email at ian@mutexlabs.com.

Please suggest features or report bugs with the GitHub issue tracker.

All documentation is copyright its authors; we didn't write any of that.