org.biojava.bio.dp
Interface HMMTrainer

All Known Implementing Classes:

SimpleHMMTrainer

public interface HMMTrainer

interface implemented by objects that train HMMs.

Author:

David Huen

Method Summary

void	completeCycle() indicate that a cycle of training is completed and the emission/transition matrices should be updated.
void	recordEmittedSymbol(State state, Symbol symbol, double weight) record that the specified symbol was emitted from the specified state.
void	recordTransition(State source, State dest, double weight) record that a transition was observed between the specified states.
void	startCycle() called to put the trainer into an initial state for a new round of training.

Method Detail

startCycle

public void startCycle()

called to put the trainer into an initial state for a new round of training.

recordEmittedSymbol

public void recordEmittedSymbol(State state,
                                Symbol symbol,
                                double weight)
                         throws IllegalSymbolException

record that the specified symbol was emitted from the specified state.

Throws:

IllegalSymbolException

recordTransition

public void recordTransition(State source,
                             State dest,
                             double weight)
                      throws IllegalArgumentException

record that a transition was observed between the specified states.

Throws:

IllegalArgumentException

completeCycle

public void completeCycle()
                   throws BioException

indicate that a cycle of training is completed and the emission/transition matrices should be updated.

Throws:

BioException