statalign.model.score.plugins
Class Blosum62

java.lang.Object
  statalign.model.score.SubstitutionScore
      statalign.model.score.plugins.Blosum62

public class Blosum62
extends SubstitutionScore

An implementation of the BLOSUM62 distances This is the distance and not the similarity matrix!!!

Author:

miklos, novak

Field Summary

Fields inherited from class statalign.model.score.SubstitutionScore

dist, which

Constructor Summary

Blosum62()
This constructor reads the distances from data/aadist.dat and sets the which[][] array.

Method Summary

Methods inherited from class java.lang.Object

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

Constructor Detail

Blosum62

public Blosum62()
         throws java.io.IOException,
                java.io.FileNotFoundException

This constructor reads the distances from data/aadist.dat and sets the which[][] array.

Throws:

java.io.IOException

java.io.FileNotFoundException