DistanceMatrix.java

// $Id: DistanceMatrix.java,v 1.1 2010/09/29 23:50:17 cmzmasek Exp $
// FORESTER -- software libraries and applications
// for evolutionary biology research and applications.
//
// Copyright (C) 2008-2009 Christian M. Zmasek
// Copyright (C) 2008-2009 Burnham Institute for Medical Research
// All rights reserved
// 
// This library is free software; you can redistribute it and/or
// modify it under the terms of the GNU Lesser General Public
// License as published by the Free Software Foundation; either
// version 2.1 of the License, or (at your option) any later version.
//
// This library is distributed in the hope that it will be useful,
// but WITHOUT ANY WARRANTY; without even the implied warranty of
// MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU
// Lesser General Public License for more details.
// 
// You should have received a copy of the GNU Lesser General Public
// License along with this library; if not, write to the Free Software
// Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA
//
// Contact: cmzmasek@yahoo.com
// WWW: www.phylosoft.org/forester

package org.forester.evoinference.matrix.distance;

public interface DistanceMatrix {

    public String getIdentifier( int i );

    public int getIndex( String identifier );

    public int getSize();

    public double getValue( int col, int row );

    public void setIdentifier( int i, final String identifier );

    public void setValue( int col, int row, double distance );

    public StringBuffer toStringBuffer( Format format );

    public static enum Format {
        PHYLIP
    }
}