org.biojava.bio.dp.twohead
Class DPInterpreter

java.lang.Object
  |
  +--org.biojava.bio.dp.twohead.DPInterpreter

All Implemented Interfaces:

CellCalculatorFactory

public class DPInterpreter

extends java.lang.Object

implements CellCalculatorFactory

Author:

Matthew Pocock, Thomas Down

Nested Class Summary

static class

DPInterpreter.Maker

Constructor Summary

DPInterpreter(DP dp)

Method Summary

CellCalculator	backwards(ScoreType scoreType)
CellCalculator	forwards(ScoreType scoreType)
CellCalculator	viterbi(ScoreType scoreType, BackPointer terminal)

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Constructor Detail

DPInterpreter

public DPInterpreter(DP dp)

Method Detail

forwards

public CellCalculator forwards(ScoreType scoreType)
                        throws IllegalSymbolException,
                               IllegalAlphabetException,
                               IllegalTransitionException

Specified by:

forwards in interface CellCalculatorFactory

IllegalSymbolException

IllegalAlphabetException

IllegalTransitionException

backwards

public CellCalculator backwards(ScoreType scoreType)
                         throws IllegalSymbolException,
                                IllegalAlphabetException,
                                IllegalTransitionException

Specified by:

backwards in interface CellCalculatorFactory

IllegalSymbolException

IllegalAlphabetException

IllegalTransitionException

viterbi

public CellCalculator viterbi(ScoreType scoreType,
                              BackPointer terminal)
                       throws IllegalSymbolException,
                              IllegalAlphabetException,
                              IllegalTransitionException

Specified by:

viterbi in interface CellCalculatorFactory

IllegalSymbolException

IllegalAlphabetException

IllegalTransitionException