A B C D E F G H I K L M N O P Q R S T U V W X Y

X

x - Variable in class fr.curie.BiNoM.pathways.analysis.structure.Node

Node position x

XGMML - Class in fr.curie.BiNoM.pathways.wrappers

Wrapper of XGMML content represented by edu.rpi.cs.xgmml.GraphDocument object

XGMML() - Constructor for class fr.curie.BiNoM.pathways.wrappers.XGMML

XGMMLExport - Class in fr.curie.BiNoM.pathways.utils

deprecated

XGMMLExport() - Constructor for class fr.curie.BiNoM.pathways.utils.XGMMLExport

XGMMLExtensionFilter - Class in fr.curie.BiNoM.cytoscape.biopax.query

XGMMLExtensionFilter() - Constructor for class fr.curie.BiNoM.cytoscape.biopax.query.XGMMLExtensionFilter

xref - Interface in fr.curie.BiNoM.pathways.biopax

Interface for xref ontology class
Use the fr.curie.BiNoM.pathways.biopax.biopax_DASH_level2_DOT_owlFactory to create instances of this interface.

XREFAdded(biochemicalReaction, xref) - Method in interface fr.curie.BiNoM.pathways.biopax.biochemicalReactionListener

Called when a value of XREF has been added

XREFAdded(catalysis, xref) - Method in interface fr.curie.BiNoM.pathways.biopax.catalysisListener

Called when a value of XREF has been added

XREFAdded(complexAssembly, xref) - Method in interface fr.curie.BiNoM.pathways.biopax.complexAssemblyListener

Called when a value of XREF has been added

XREFAdded(complex, xref) - Method in interface fr.curie.BiNoM.pathways.biopax.complexListener

Called when a value of XREF has been added

XREFAdded(confidence, xref) - Method in interface fr.curie.BiNoM.pathways.biopax.confidenceListener

Called when a value of XREF has been added

XREFAdded(confidence, publicationXref) - Method in interface fr.curie.BiNoM.pathways.biopax.confidenceListener

Called when a value of XREF has been added

XREFAdded(control, xref) - Method in interface fr.curie.BiNoM.pathways.biopax.controlListener

Called when a value of XREF has been added

XREFAdded(conversion, xref) - Method in interface fr.curie.BiNoM.pathways.biopax.conversionListener

Called when a value of XREF has been added

XREFAdded(dataSource, xref) - Method in interface fr.curie.BiNoM.pathways.biopax.dataSourceListener

Called when a value of XREF has been added

XREFAdded(dataSource, publicationXref) - Method in interface fr.curie.BiNoM.pathways.biopax.dataSourceListener

Called when a value of XREF has been added

XREFAdded(dataSource, unificationXref) - Method in interface fr.curie.BiNoM.pathways.biopax.dataSourceListener

Called when a value of XREF has been added

XREFAdded(dna, xref) - Method in interface fr.curie.BiNoM.pathways.biopax.dnaListener

Called when a value of XREF has been added

XREFAdded(entity, xref) - Method in interface fr.curie.BiNoM.pathways.biopax.entityListener

Called when a value of XREF has been added

XREFAdded(evidence, xref) - Method in interface fr.curie.BiNoM.pathways.biopax.evidenceListener

Called when a value of XREF has been added

XREFAdded(interaction, xref) - Method in interface fr.curie.BiNoM.pathways.biopax.interactionListener

Called when a value of XREF has been added

XREFAdded(modulation, xref) - Method in interface fr.curie.BiNoM.pathways.biopax.modulationListener

Called when a value of XREF has been added

XREFAdded(openControlledVocabulary, xref) - Method in interface fr.curie.BiNoM.pathways.biopax.openControlledVocabularyListener

Called when a value of XREF has been added

XREFAdded(openControlledVocabulary, unificationXref) - Method in interface fr.curie.BiNoM.pathways.biopax.openControlledVocabularyListener

Called when a value of XREF has been added

XREFAdded(pathway, xref) - Method in interface fr.curie.BiNoM.pathways.biopax.pathwayListener

Called when a value of XREF has been added

XREFAdded(physicalEntity, xref) - Method in interface fr.curie.BiNoM.pathways.biopax.physicalEntityListener

Called when a value of XREF has been added

XREFAdded(physicalInteraction, xref) - Method in interface fr.curie.BiNoM.pathways.biopax.physicalInteractionListener

Called when a value of XREF has been added

XREFAdded(protein, xref) - Method in interface fr.curie.BiNoM.pathways.biopax.proteinListener

Called when a value of XREF has been added

XREFAdded(rna, xref) - Method in interface fr.curie.BiNoM.pathways.biopax.rnaListener

Called when a value of XREF has been added

XREFAdded(sequenceFeature, xref) - Method in interface fr.curie.BiNoM.pathways.biopax.sequenceFeatureListener

Called when a value of XREF has been added

XREFAdded(smallMolecule, xref) - Method in interface fr.curie.BiNoM.pathways.biopax.smallMoleculeListener

Called when a value of XREF has been added

XREFAdded(transport, xref) - Method in interface fr.curie.BiNoM.pathways.biopax.transportListener

Called when a value of XREF has been added

XREFAdded(transportWithBiochemicalReaction, xref) - Method in interface fr.curie.BiNoM.pathways.biopax.transportWithBiochemicalReactionListener

Called when a value of XREF has been added

xrefImpl - Class in fr.curie.BiNoM.pathways.biopax

Implementation of xref Use the fr.curie.BiNoM.pathways.biopax.biopax_DASH_level2_DOT_owlFactory to create instances of this class.

xrefListener - Interface in fr.curie.BiNoM.pathways.biopax

Implementations of this listener may be registered with instances of fr.curie.BiNoM.pathways.biopax.xref to receive notification when properties changed, added or removed.

XREFProperty - Static variable in interface fr.curie.BiNoM.pathways.biopax.confidence

The Jena Property for XREF

XREFProperty - Static variable in interface fr.curie.BiNoM.pathways.biopax.dataSource

The Jena Property for XREF

XREFProperty - Static variable in interface fr.curie.BiNoM.pathways.biopax.entity

The Jena Property for XREF

XREFProperty - Static variable in interface fr.curie.BiNoM.pathways.biopax.evidence

The Jena Property for XREF

XREFProperty - Static variable in interface fr.curie.BiNoM.pathways.biopax.openControlledVocabulary

The Jena Property for XREF

XREFProperty - Static variable in interface fr.curie.BiNoM.pathways.biopax.sequenceFeature

The Jena Property for XREF

XREFRemoved(biochemicalReaction, xref) - Method in interface fr.curie.BiNoM.pathways.biopax.biochemicalReactionListener

Called when a value of XREF has been removed

XREFRemoved(catalysis, xref) - Method in interface fr.curie.BiNoM.pathways.biopax.catalysisListener

Called when a value of XREF has been removed

XREFRemoved(complexAssembly, xref) - Method in interface fr.curie.BiNoM.pathways.biopax.complexAssemblyListener

Called when a value of XREF has been removed

XREFRemoved(complex, xref) - Method in interface fr.curie.BiNoM.pathways.biopax.complexListener

Called when a value of XREF has been removed

XREFRemoved(confidence, xref) - Method in interface fr.curie.BiNoM.pathways.biopax.confidenceListener

Called when a value of XREF has been removed

XREFRemoved(confidence, publicationXref) - Method in interface fr.curie.BiNoM.pathways.biopax.confidenceListener

Called when a value of XREF has been removed

XREFRemoved(control, xref) - Method in interface fr.curie.BiNoM.pathways.biopax.controlListener

Called when a value of XREF has been removed

XREFRemoved(conversion, xref) - Method in interface fr.curie.BiNoM.pathways.biopax.conversionListener

Called when a value of XREF has been removed

XREFRemoved(dataSource, xref) - Method in interface fr.curie.BiNoM.pathways.biopax.dataSourceListener

Called when a value of XREF has been removed

XREFRemoved(dataSource, publicationXref) - Method in interface fr.curie.BiNoM.pathways.biopax.dataSourceListener

Called when a value of XREF has been removed

XREFRemoved(dataSource, unificationXref) - Method in interface fr.curie.BiNoM.pathways.biopax.dataSourceListener

Called when a value of XREF has been removed

XREFRemoved(dna, xref) - Method in interface fr.curie.BiNoM.pathways.biopax.dnaListener

Called when a value of XREF has been removed

XREFRemoved(entity, xref) - Method in interface fr.curie.BiNoM.pathways.biopax.entityListener

Called when a value of XREF has been removed

XREFRemoved(evidence, xref) - Method in interface fr.curie.BiNoM.pathways.biopax.evidenceListener

Called when a value of XREF has been removed

XREFRemoved(interaction, xref) - Method in interface fr.curie.BiNoM.pathways.biopax.interactionListener

Called when a value of XREF has been removed

XREFRemoved(modulation, xref) - Method in interface fr.curie.BiNoM.pathways.biopax.modulationListener

Called when a value of XREF has been removed

XREFRemoved(openControlledVocabulary, xref) - Method in interface fr.curie.BiNoM.pathways.biopax.openControlledVocabularyListener

Called when a value of XREF has been removed

XREFRemoved(openControlledVocabulary, unificationXref) - Method in interface fr.curie.BiNoM.pathways.biopax.openControlledVocabularyListener

Called when a value of XREF has been removed

XREFRemoved(pathway, xref) - Method in interface fr.curie.BiNoM.pathways.biopax.pathwayListener

Called when a value of XREF has been removed

XREFRemoved(physicalEntity, xref) - Method in interface fr.curie.BiNoM.pathways.biopax.physicalEntityListener

Called when a value of XREF has been removed

XREFRemoved(physicalInteraction, xref) - Method in interface fr.curie.BiNoM.pathways.biopax.physicalInteractionListener

Called when a value of XREF has been removed

XREFRemoved(protein, xref) - Method in interface fr.curie.BiNoM.pathways.biopax.proteinListener

Called when a value of XREF has been removed

XREFRemoved(rna, xref) - Method in interface fr.curie.BiNoM.pathways.biopax.rnaListener

Called when a value of XREF has been removed

XREFRemoved(sequenceFeature, xref) - Method in interface fr.curie.BiNoM.pathways.biopax.sequenceFeatureListener

Called when a value of XREF has been removed

XREFRemoved(smallMolecule, xref) - Method in interface fr.curie.BiNoM.pathways.biopax.smallMoleculeListener

Called when a value of XREF has been removed

XREFRemoved(transport, xref) - Method in interface fr.curie.BiNoM.pathways.biopax.transportListener

Called when a value of XREF has been removed

XREFRemoved(transportWithBiochemicalReaction, xref) - Method in interface fr.curie.BiNoM.pathways.biopax.transportWithBiochemicalReactionListener

Called when a value of XREF has been removed