001/*
002 *                    BioJava development code
003 *
004 * This code may be freely distributed and modified under the
005 * terms of the GNU Lesser General Public Licence.  This should
006 * be distributed with the code.  If you do not have a copy,
007 * see:
008 *
009 *      http://www.gnu.org/copyleft/lesser.html
010 *
011 * Copyright for this code is held jointly by the individual
012 * authors.  These should be listed in @author doc comments.
013 *
014 * For more information on the BioJava project and its aims,
015 * or to join the biojava-l mailing list, visit the home page
016 * at:
017 *
018 *      http://www.biojava.org/
019 *
020 */
021
022package org.biojava.bio.dp.twohead;
023
024import org.biojava.bio.dp.BackPointer;
025
026/**
027 * <p>
028 * A single cell in the DP matrix.
029 * </p>
030 *
031 * <p>
032 * The cell is divided into parallel arrays for the cell scores, backpointers
033 * and emission probabilities. The scores and backpointer arrays are as long
034 * as the number of states in the model. The emissions array is as long as
035 * the number of emitting states in the model.
036 * </p>
037 *
038 * @author Matthew Pocock
039 * @since 1.2
040 */
041public final class Cell {
042  public double [] scores;
043  public BackPointer [] backPointers;
044  public double [] emissions;
045}