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 */
021package org.biojava.nbio.genome.util;
022
023import org.biojava.nbio.core.exceptions.CompoundNotFoundException;
024import org.biojava.nbio.core.sequence.DNASequence;
025import org.biojava.nbio.core.sequence.ProteinSequence;
026import org.biojava.nbio.core.sequence.RNASequence;
027
028public class ProteinMappingTools {
029
030    /** Converts the DNA sequence to protein sequence.
031    *
032    * @param dnaSequence the DNA sequence
033    * 
034    * @return the protein sequence
035    */
036        public static ProteinSequence convertDNAtoProteinSequence(String dnaSequence) throws CompoundNotFoundException {
037                DNASequence dna = new DNASequence(dnaSequence);
038                return convertDNAtoProteinSequence(dna);
039        }
040
041        /** Converts the DNA sequence to protein sequence.
042         *
043         * @param dnaSequence the DNA sequence
044         *
045         * @return the protein sequence
046         */
047        public static ProteinSequence convertDNAtoProteinSequence(DNASequence dnaSequence) throws CompoundNotFoundException {
048                RNASequence mRNA = dnaSequence.getRNASequence();
049                return mRNA.getProteinSequence();
050        }
051}