jaligner.matrix
Class MatrixGenerator

java.lang.Object
  jaligner.matrix.MatrixGenerator

public final class MatrixGenerator

extends java.lang.Object

A utility class to generate a scoring matrix from a fixed match and mismatch scoring scheme.

Author:

Ahmed Moustafa (ahmed@users.sf.net)

Constructor Summary

MatrixGenerator()

Method Summary

static Matrix

generate(float match, float mismatch) Returns scoring matrix from a fixed match/mismatch scoring scheme.

Methods inherited from class java.lang.Object

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

Constructor Detail

MatrixGenerator

public MatrixGenerator()

Method Detail

generate

public static Matrix generate(float match,
                              float mismatch)

Returns scoring matrix from a fixed match/mismatch scoring scheme.

Parameters:

match - match score

mismatch - mistmatch score

Returns:

scoring matrix