# Segmentation Methods for Array CGH Analysis

## Documentation for package ‘cghseg’ version 1.0.5

- DESCRIPTION file.

## Help Pages

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