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

## Documentation for package ‘SMAP’ version 1.14.0

- DESCRIPTION file.
- Overview of user guides and package vignettes; browse directory.

## Help Pages

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