seq

Class MotifFinder2

java.lang.Object

seq.MotifFinder2

public class MotifFinder2
extends Object

Modified version of MotifFinder.java This program will search a fasta file for a motif. It will match motifs and/or sequences containing ambiguity symbols.

Author:

Matthew Pocock, Andy Hammer, Mark Schreiber

Constructor Summary

Constructors

Constructor and Description
MotifFinder2()

Method Summary

Methods

Modifier and Type	Method and Description
static void	main(String[] args) Run the Program

Methods inherited from class java.lang.Object

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

Constructor Detail

MotifFinder2

public MotifFinder2()

Method Detail

main

public static void main(String[] args)
                 throws org.biojava.bio.BioException,
                        IOException

Run the Program

Parameters:

args - a motif (eg acgtnnc) and a fasta file

Throws:

org.biojava.bio.BioException

IOException