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}