Package org.biojava.nbio.genome.homology

Class GFF3FromUniprotBlastHits

java.lang.Object

org.biojava.nbio.genome.homology.GFF3FromUniprotBlastHits

public class GFF3FromUniprotBlastHits
extends Object

Author:

Scooter Willis , Mark Chapman

Constructor Summary

Constructors

Constructor	Description
GFF3FromUniprotBlastHits()

Method Summary

Modifier and Type	Method	Description
static void	main(String[] args)
void	process(File xmlBlastHits, double ecutoff, LinkedHashMap<String,org.biojava.nbio.core.sequence.GeneSequence> geneSequenceHashMap, OutputStream gff3Output)
void	process(LinkedHashMap<String,ArrayList<String>> hits, LinkedHashMap<String,org.biojava.nbio.core.sequence.GeneSequence> geneSequenceHashMap, OutputStream gff3Output)

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Constructor Detail

GFF3FromUniprotBlastHits

public GFF3FromUniprotBlastHits()

Method Detail

process

public void process(File xmlBlastHits,
                    double ecutoff,
                    LinkedHashMap<String,org.biojava.nbio.core.sequence.GeneSequence> geneSequenceHashMap,
                    OutputStream gff3Output)
             throws Exception

Throws:

Exception

process

public void process(LinkedHashMap<String,ArrayList<String>> hits,
                    LinkedHashMap<String,org.biojava.nbio.core.sequence.GeneSequence> geneSequenceHashMap,
                    OutputStream gff3Output)
             throws Exception

Throws:

Exception

main

public static void main(String[] args)