performance

Class SmithWatermanExample

java.lang.Object

performance.SmithWatermanExample

public class SmithWatermanExample
extends Object

Since:

1.7

Author:

Andreas Dräger (draeger) , Andreas Prlic

Constructor Summary

Constructors

Constructor and Description
SmithWatermanExample()

Method Summary

Methods

Modifier and Type	Method and Description
static void	main(String[] args) This method computes a pairwise local alignment between two given sequences and prints the result on the standard output stream.

Methods inherited from class java.lang.Object

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

Constructor Detail

SmithWatermanExample

public SmithWatermanExample()

Method Detail

main

public static void main(String[] args)

This method computes a pairwise local alignment between two given sequences and prints the result on the standard output stream. The sequences must be genbank files and the substitution matrix must be defined for the same alphabet than both sequences.

Parameters:

args - query sequence file (genbank), subject sequence file (genbank), substitution matrix file