cytoscape.data.ontology
Class GOTerm

java.lang.Object
  org.biojava.utils.AbstractChangeable
      cytoscape.data.ontology.OntologyTerm
          cytoscape.data.ontology.GOTerm

All Implemented Interfaces:

org.biojava.bio.Annotatable, org.biojava.ontology.OntologyTerm, org.biojava.ontology.Term, org.biojava.utils.Changeable

public class GOTerm
extends OntologyTerm

A Gene Ontology term. This class is an extended version of normal ontology.

Author:

kono

Nested Class Summary

Nested classes/interfaces inherited from class cytoscape.data.ontology.OntologyTerm

OntologyTerm.SynonymType

Nested classes/interfaces inherited from interface org.biojava.ontology.OntologyTerm

org.biojava.ontology.OntologyTerm.Impl

Nested classes/interfaces inherited from interface org.biojava.bio.Annotatable

org.biojava.bio.Annotatable.AnnotationForwarder

Field Summary

Fields inherited from class cytoscape.data.ontology.OntologyTerm

SYNONYM

Fields inherited from interface org.biojava.ontology.Term

ONTOLOGY

Fields inherited from interface org.biojava.bio.Annotatable

ANNOTATION

Constructor Summary

GOTerm(String id, String termName, String ontologyName, String description)
Creates a new GOTerm object.

Method Summary

Map	getCrossReferences() DOCUMENT ME!
String	getDescription() DOCUMENT ME!
String	getFullName() DOCUMENT ME!
String	getNameSpace() DOCUMENT ME!
String	getType() DOCUMENT ME!

Methods inherited from class cytoscape.data.ontology.OntologyTerm

addSynonym, addSynonym, getAnnotation, getName, getOntology, getSynonyms, removeSynonym

Methods inherited from class org.biojava.utils.AbstractChangeable

addChangeListener, addChangeListener, generateChangeSupport, getChangeSupport, hasListeners, hasListeners, isUnchanging, removeChangeListener, removeChangeListener

Methods inherited from class java.lang.Object

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

Methods inherited from interface org.biojava.utils.Changeable

addChangeListener, addChangeListener, isUnchanging, removeChangeListener, removeChangeListener

Constructor Detail

GOTerm

public GOTerm(String id,
              String termName,
              String ontologyName,
              String description)

Creates a new GOTerm object.

Parameters:

id - DOCUMENT ME!

termName - DOCUMENT ME!

ontologyName - DOCUMENT ME!

description - DOCUMENT ME!

Method Detail

getNameSpace

public String getNameSpace()

DOCUMENT ME!

Returns:

DOCUMENT ME!

getCrossReferences

public Map getCrossReferences()

DOCUMENT ME!

Returns:

DOCUMENT ME!

getFullName

public String getFullName()

DOCUMENT ME!

Returns:

DOCUMENT ME!

getDescription

public String getDescription()

DOCUMENT ME!

Specified by:

getDescription in interface org.biojava.ontology.Term

Overrides:

getDescription in class OntologyTerm

Returns:

DOCUMENT ME!

getType

public String getType()

DOCUMENT ME!

Returns:

DOCUMENT ME!