DPInterpreter (biojava-legacy 1.9.7 API)

java.lang.Object

org.biojava.bio.dp.twohead.DPInterpreter

All Implemented Interfaces:: Serializable, CellCalculatorFactory

public class DPInterpreter extends Object implements CellCalculatorFactory, Serializable

Author:

Matthew Pocock, Thomas Down

See Also:

Serialized Form

Nested Class Summary

Nested Classes

Modifier and Type

Class

Description

static class

DPInterpreter.Maker
Constructor Summary

Constructors

Constructor

Description

DPInterpreter(DP dp)
Method Summary

Modifier and Type

Method

Description

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 Details
- DPInterpreter
  
  public DPInterpreter(DP dp)
Method Details
- forwards
  
  public CellCalculator forwards(ScoreType scoreType) throws IllegalSymbolException, IllegalAlphabetException, IllegalTransitionException
  
  Specified by:
  
  forwards in interface CellCalculatorFactory
  
  Throws:
  
  IllegalSymbolException
  
  IllegalAlphabetException
  
  IllegalTransitionException
- backwards
  
  public CellCalculator backwards(ScoreType scoreType) throws IllegalSymbolException, IllegalAlphabetException, IllegalTransitionException
  
  Specified by:
  
  backwards in interface CellCalculatorFactory
  
  Throws:
  
  IllegalSymbolException
  
  IllegalAlphabetException
  
  IllegalTransitionException
- viterbi
  
  public CellCalculator viterbi(ScoreType scoreType, BackPointer terminal) throws IllegalSymbolException, IllegalAlphabetException, IllegalTransitionException
  
  Specified by:
  
  viterbi in interface CellCalculatorFactory
  
  Throws:
  
  IllegalSymbolException
  
  IllegalAlphabetException
  
  IllegalTransitionException