edu.rit.compbio.seq
Class Blosum62

java.lang.Object
  extended by edu.rit.compbio.seq.Blosum62

public class Blosum62
extends Object

Class Blosum62 provides the BLOSUM-62 substitution matrix for protein sequence alignment. The expression Blosum62.matrix[x][y] is the score when amino acid x is aligned with amino acid y, where x and y are amino acids in the range 0..27 from a ProteinSequence.

The BLOSUM-62 substitution matrix is taken from http://www.ncbi.nlm.nih.gov/Class/BLAST/BLOSUM62.txt.


Field Summary
static int[][] matrix
          The BLOSUM-62 protein substitution matrix.
 
Method Summary
 
Methods inherited from class java.lang.Object
clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait
 

Field Detail

matrix

public static final int[][] matrix
The BLOSUM-62 protein substitution matrix.



Copyright © 2005-2012 by Alan Kaminsky. All rights reserved. Send comments to ark­@­cs.rit.edu.