org.biojava.bio.dp
Class BaumWelchSampler
java.lang.Object
org.biojava.bio.dp.AbstractTrainer
org.biojava.bio.dp.BaumWelchSampler
- All Implemented Interfaces:
- Serializable, TrainingAlgorithm
public class BaumWelchSampler
- extends AbstractTrainer
- implements Serializable
Train a hidden markov model using a sampling algorithm.
Note: this class currently only works for one-head models.
- Since:
- 1.0
- Author:
- Matthew Pocock, Richard Holland
- See Also:
- Serialized Form
Methods inherited from class java.lang.Object |
clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait |
BaumWelchSampler
public BaumWelchSampler(DP dp)
singleSequenceIteration
protected double singleSequenceIteration(ModelTrainer trainer,
SymbolList symList)
throws IllegalSymbolException,
IllegalTransitionException,
IllegalAlphabetException
- Specified by:
singleSequenceIteration
in class AbstractTrainer
- Throws:
IllegalSymbolException
IllegalTransitionException
IllegalAlphabetException
singleSequenceIteration
protected double singleSequenceIteration(ModelTrainer trainer,
SymbolList symList,
ScoreType scoreType)
throws IllegalSymbolException,
IllegalTransitionException,
IllegalAlphabetException
- Throws:
IllegalSymbolException
IllegalTransitionException
IllegalAlphabetException