jebl.evolution.align.scores
Interface ScoreMatrix

All Known Implementing Classes:
AminoAcidScores, Blosum45, Blosum50, Blosum55, Blosum60, Blosum62, Blosum65, Blosum70, Blosum75, Blosum80, Blosum85, Blosum90, Hamming, JukesCantor, NucleotideScores, Pam100, Pam110, Pam120, Pam130, Pam140, Pam150, Pam160, Pam170, Pam180, Pam190, Pam200, Pam210, Pam220, Pam230, Pam240, Pam250, Scores, SubstScoreMatrix

public interface ScoreMatrix

Version:
$Id: ScoreMatrix.java 360 2006-06-22 07:42:48Z pepster $
Author:
Alexei Drummond

Method Summary
 java.lang.String getAlphabet()
           
 java.lang.String getName()
           
 float getScore(char x, char y)
           
 

Method Detail

getName

java.lang.String getName()
Returns:
human readable name

getScore

float getScore(char x,
               char y)
Returns:
the score for matching char x with char y

getAlphabet

java.lang.String getAlphabet()
Returns:
a string containing the valid characters for this score matrix.


http://code.google.com/p/jebl2/