com.wcohen.secondstring
Class AffineGap

java.lang.Object
  |
  +--com.wcohen.secondstring.AbstractStringDistance
        |
        +--com.wcohen.secondstring.AffineGap

All Implemented Interfaces:

StringDistance

Direct Known Subclasses:

MongeElkan

public class AffineGap

extends AbstractStringDistance

Affine-gap string distance, following Durban et al. Sec 2.3.

Nested Class Summary

protected class

AffineGap.MatrixTrio

Constructor Summary

AffineGap()

AffineGap(CharMatchScore charMatchScore, double openGapScore, double extendGapScore, double lowerBound)

Method Summary

java.lang.String	explainScore(StringWrapper s, StringWrapper t) This method needs to be implemented by subclasses.
static void	main(java.lang.String[] argv)
double	score(StringWrapper s, StringWrapper t) This method needs to be implemented by subclasses.

Methods inherited from class com.wcohen.secondstring.AbstractStringDistance

accumulateStatistics, doMain, explainScore, prepare, score

Methods inherited from class java.lang.Object

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

Constructor Detail

AffineGap

public AffineGap()

AffineGap

public AffineGap(CharMatchScore charMatchScore,
                 double openGapScore,
                 double extendGapScore,
                 double lowerBound)

Method Detail

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 java.lang.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

main

public static void main(java.lang.String[] argv)