StringToKMers.java

/*
 * Created on Mar 11, 2006
 */
package org.seqcode.genome.sequence;

import java.util.*;

import org.seqcode.gsebricks.verbs.Expander;


/**
 * @author tdanford
 */
public class StringToKMers implements Expander<String,String> {
    
    private int width;

    public StringToKMers(int w) { 
        width = w;
    }

    /* (non-Javadoc)
     * @see org.seqcode.gsebricks.verbs.Expander#execute(null)
     */
    public Iterator<String> execute(String base) {
        LinkedList<String> kmerList = new LinkedList<String>();
        for(int i = 0; i < base.length()-width; i++) { 
            kmerList.addLast(base.substring(i, i + width));
        }
        return kmerList.iterator();
    }

}