org.processmining.plugins.guidetreeminer.distance

Class GenericEditDistance

java.lang.Object

org.processmining.plugins.guidetreeminer.distance.GenericEditDistance

public class GenericEditDistance
extends java.lang.Object

Since:

01 June 2009

Version:

1.0

Author:

R.P. Jagadeesh Chandra 'JC' Bose

Constructor Summary

Constructors

Constructor and Description
GenericEditDistance(int encodingLength, java.util.List<java.lang.String> encodedTraceList, java.util.Map<java.lang.String,java.lang.Integer> substitutionScoreMap, java.util.Map<java.lang.String,java.lang.Integer> indelRightGivenLeftScoreMap, int incrementLikeSubstitutionScore, float scaleFactor)

Method Summary

Modifier and Type	Method and Description
float	getPairWiseGlobalAlignScore(java.lang.String sequence1, java.lang.String sequence2)
float	getPairWiseSemiGlobalAlign(java.lang.String sequence1, java.lang.String sequence2)
float[][]	getSimilarityMatrix()
void	incrementLikeSubstitutions(int incrementValue)
protected void	printMatrix(int[][] matrix)
void	setGapPenalty(int gapPenalty)
void	setIndelRightGivenLeftScoreScaleFactor(java.util.Map<java.lang.String,java.lang.Integer> indelRightGivenLeftScoreMap, float indelScaleFactor)
void	setLengthRatioThreshold(float lengthRatioThreshold)

Methods inherited from class java.lang.Object

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

Constructor Detail

GenericEditDistance

public GenericEditDistance(int encodingLength,
                           java.util.List<java.lang.String> encodedTraceList,
                           java.util.Map<java.lang.String,java.lang.Integer> substitutionScoreMap,
                           java.util.Map<java.lang.String,java.lang.Integer> indelRightGivenLeftScoreMap,
                           int incrementLikeSubstitutionScore,
                           float scaleFactor)

Method Detail

printMatrix

protected void printMatrix(int[][] matrix)

setIndelRightGivenLeftScoreScaleFactor

public void setIndelRightGivenLeftScoreScaleFactor(java.util.Map<java.lang.String,java.lang.Integer> indelRightGivenLeftScoreMap,
                                                   float indelScaleFactor)

incrementLikeSubstitutions

public void incrementLikeSubstitutions(int incrementValue)

getPairWiseGlobalAlignScore

public float getPairWiseGlobalAlignScore(java.lang.String sequence1,
                                         java.lang.String sequence2)

getPairWiseSemiGlobalAlign

public float getPairWiseSemiGlobalAlign(java.lang.String sequence1,
                                        java.lang.String sequence2)

setLengthRatioThreshold

public void setLengthRatioThreshold(float lengthRatioThreshold)

setGapPenalty

public void setGapPenalty(int gapPenalty)

getSimilarityMatrix

public float[][] getSimilarityMatrix()