aligner
Class AminoAcidSubstitutionMatrix

java.lang.Object
  aligner.AminoAcidSubstitutionMatrix

All Implemented Interfaces:

SubstitutionMatrix

public class AminoAcidSubstitutionMatrix
extends java.lang.Object
implements SubstitutionMatrix

Created by IntelliJ IDEA. User: Roy Date: 30/07/2005 Time: 10:25:13 To change this template use File | Settings | File Templates.

Field Summary

(package private) java.lang.String	amino_a
(package private) java.lang.Integer[][]	scoringMatrix

Constructor Summary

AminoAcidSubstitutionMatrix(java.lang.String mat_name)

Method Summary

int	getScore(char sourceAA, char imageAA)
void	print()

Methods inherited from class java.lang.Object

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

Field Detail

scoringMatrix

java.lang.Integer[][] scoringMatrix

amino_a

java.lang.String amino_a

Constructor Detail

AminoAcidSubstitutionMatrix

public AminoAcidSubstitutionMatrix(java.lang.String mat_name)

Method Detail

getScore

public int getScore(char sourceAA,
                    char imageAA)

Specified by:

getScore in interface SubstitutionMatrix

print

public void print()