com.wcohen.ss

Class ApproxNeedlemanWunsch

java.lang.Object

com.wcohen.ss.AbstractStringDistance

com.wcohen.ss.ApproxNeedlemanWunsch

All Implemented Interfaces:

StringDistance, StringDistanceLearner

public class ApproxNeedlemanWunsch
extends AbstractStringDistance

Needleman-Wunsch string distance, following Durban et al. Sec 2.3, but using an approximate string distance.

Constructor Summary

Constructors

Constructor and Description
ApproxNeedlemanWunsch()
ApproxNeedlemanWunsch(CharMatchScore charMatchScore, double gapCost)

Method Summary

Modifier and Type	Method and Description
String	explainScore(StringWrapper s, StringWrapper t) This method needs to be implemented by subclasses.
int	getAlignedChar(int iMinusOne, boolean preferHigherIndices) Find a character in the first string, s, that can be aligned with the i-th character in the second string, t.
static void	main(String[] argv)
double	score(StringWrapper s, StringWrapper t) This method needs to be implemented by subclasses.
void	setWidth(int w)

Methods inherited from class com.wcohen.ss.AbstractStringDistance

addExample, doMain, explainScore, getDistance, hasNextQuery, nextQuery, prepare, prepare, prepare, score, setDistanceInstancePool, setStringWrapperPool

Methods inherited from class java.lang.Object

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

Constructor Detail

ApproxNeedlemanWunsch

public ApproxNeedlemanWunsch()

ApproxNeedlemanWunsch

public ApproxNeedlemanWunsch(CharMatchScore charMatchScore,
                             double gapCost)

Method Detail

setWidth

public void setWidth(int w)

score

public double score(StringWrapper s,
                    StringWrapper t)

Description copied from class: AbstractStringDistance

This method needs to be implemented by subclasses.

Specified by:

score in interface StringDistance

Specified by:

score in class AbstractStringDistance

explainScore

public String explainScore(StringWrapper s,
                           StringWrapper t)

Description copied from class: AbstractStringDistance

This method needs to be implemented by subclasses.

Specified by:

explainScore in interface StringDistance

Specified by:

explainScore in class AbstractStringDistance

getAlignedChar

public int getAlignedChar(int iMinusOne,
                          boolean preferHigherIndices)

Find a character in the first string, s, that can be aligned with the i-th character in the second string, t.

main

public static void main(String[] argv)
                 throws Exception

Throws:

Exception