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| A | Class "SMAPHMM": A class to manage HMMs for the SMAP package |
| chromosome | Class "SMAPObservations": A class to manage microarray observations for the SMAP package |
| endPosition | Class "SMAPObservations": A class to manage microarray observations for the SMAP package |
| GBM | Glioblastoma multiforme array CGH data |
| HMM | Class "SMAPProfile" |
| name | Class "SMAPObservations": A class to manage microarray observations for the SMAP package |
| noObservations | Class "SMAPObservations": A class to manage microarray observations for the SMAP package |
| 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 the SMAP package |
| Q | Class "SMAPProfile" |
| reporterId | Class "SMAPObservations": A class to manage microarray observations for the SMAP package |
| smap | smap: A Segmental Maximum A Posteriori Approach to Array-CGH Copy Number Profiling |
| 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 the SMAP package |
| SMAPProfile-class | Class "SMAPProfile" |
| SMAPProfiles-class | Class "SMAPProfiles" |
| startPosition | Class "SMAPObservations": A class to manage microarray observations for the SMAP package |
| value | Class "SMAPObservations": A class to manage microarray observations for the SMAP package |