org.biojava.nbio.genome.parsers.genename

Class GeneNamesParser

java.lang.Object

org.biojava.nbio.genome.parsers.genename.GeneNamesParser

public class GeneNamesParser
extends Object

Parses a file from the www.genenames.org website that contains a mapping of human gene names to other databases

Author:

Andreas Prlic

Field Summary

Fields

Modifier and Type	Field and Description
static String	DEFAULT_GENENAMES_URL

Constructor Summary

Constructors

Constructor and Description
GeneNamesParser()

Method Summary

Modifier and Type	Method and Description
static List<GeneName>	getGeneNames()
static List<GeneName>	getGeneNames(InputStream inStream) Get a list of GeneNames from an input stream.
static void	main(String[] args) parses a file from the genenames website

Methods inherited from class java.lang.Object

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

Field Detail

DEFAULT_GENENAMES_URL

public static final String DEFAULT_GENENAMES_URL

See Also:

Constant Field Values

Constructor Detail

GeneNamesParser

public GeneNamesParser()

Method Detail

main

public static void main(String[] args)

parses a file from the genenames website

Parameters:

args -

getGeneNames

public static List<GeneName> getGeneNames()
                                   throws IOException

Throws:

IOException

getGeneNames

public static List<GeneName> getGeneNames(InputStream inStream)
                                   throws IOException

Get a list of GeneNames from an input stream.

Parameters:

inStream -

Returns:

list of geneNames

Throws:

IOException