A Segmental Maximum A Posteriori Approach to Array-CGH Copy Number Profiling

Documentation for package ‘SMAP’ version 1.14.0

A	Class "SMAPHMM": A class to manage HMMs for the SMAP package
chromosome	Class "SMAPObservations": A class to manage microarray observations for
endPosition	Class "SMAPObservations": A class to manage microarray observations for
GBM	Glioblastoma multiforme array CGH data
HMM	Class "SMAPProfile"
name	Class "SMAPObservations": A class to manage microarray observations for
noObservations	Class "SMAPObservations": A class to manage microarray observations for
noStates	Class "SMAPHMM": A class to manage HMMs for the SMAP package
observations	Class "SMAPProfile"
P	Class "SMAPProfile"
Phi	Class "SMAPHMM": A class to manage HMMs for the SMAP package
Pi	Class "SMAPHMM": A class to manage HMMs for the SMAP package
plot-method	Class "SMAPObservations": A class to manage microarray observations for
Q	Class "SMAPProfile"
reporterId	Class "SMAPObservations": A class to manage microarray observations for
smap	smap: A Segmental Maximum A Posteriori Approach to Array-CGH Copy
SMAPHMM	Constructor for "SMAPHMM" objects
SMAPHMM-class	Class "SMAPHMM": A class to manage HMMs for the SMAP package
SMAPObservations	Constructor for "SMAPObservations" objects
SMAPObservations-class	Class "SMAPObservations": A class to manage microarray observations for
SMAPProfile-class	Class "SMAPProfile"
SMAPProfiles-class	Class "SMAPProfiles"
startPosition	Class "SMAPObservations": A class to manage microarray observations for
value	Class "SMAPObservations": A class to manage microarray observations for