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

Description

static final String

DEFAULT_GENENAMES_URL
Constructor Summary

Constructors

Constructor

Description

GeneNamesParser()
Method Summary

Modifier and Type

Method

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 Details
- DEFAULT_GENENAMES_URL
  
  public static final String DEFAULT_GENENAMES_URL
  See Also:
  
  Constant Field Values
Constructor Details
- GeneNamesParser
  
  public GeneNamesParser()
Method Details
- 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