Uses of Interface
org.biopax.paxtools.model.level2.XReferrable

Packages that use XReferrable

Package	Description
org.biopax.paxtools.model.level2	This package contains the interfaces that maps to the BioPAX level 2 specification.

Uses of XReferrable in org.biopax.paxtools.model.level2

Subinterfaces of XReferrable in org.biopax.paxtools.model.level2

Modifier and Type	Interface	Description
interface	biochemicalReaction	A conversion interaction in which one or more entities (substrates) undergo ovalent changes to become one or more other entities (products).
interface	catalysis	A control interaction in which a physical entity (a catalyst) increases the rate of a conversion interaction by lowering its activation energy.
interface	complex	A physical entity whose structure is comprised of other physical entities bound to each other non-covalently, at least one of which is a macromolecule (e.g.
interface	complexAssembly	A conversion interaction in which a set of physical entities, at least one being a macromolecule (e.g.
interface	confidence	Confidence that the containing instance actually occurs or exists in vivo, usually a statistical measure.
interface	control
interface	conversion
interface	dataSource	XREF Should be only unification and publication xrefs
interface	dna
interface	entity	This class represents a discrete biological unit used when describing pathways.
interface	evidence
interface	interaction
interface	modulation	get controlled should be catalysis
interface	openControlledVocabulary
interface	pathway
interface	physicalEntity
interface	physicalInteraction
interface	process	Tagging interface for entities that needs evidence and can be targeted by a control : Pathway and Interaction
interface	protein
interface	rna
interface	sequenceEntity	User: root Date: Aug 7, 2006 Time: 4:51:19 PM_DOT
interface	sequenceFeature
interface	smallMolecule
interface	transport
interface	transportWithBiochemicalReaction

Methods in org.biopax.paxtools.model.level2 that return types with arguments of type XReferrable

Modifier and Type	Method	Description
Set<XReferrable>	xref.isXREFof()

Methods in org.biopax.paxtools.model.level2 with parameters of type XReferrable

Modifier and Type	Method	Description
Set<publicationXref>	XReferrable.findCommonPublications(XReferrable that)
Set<relationshipXref>	XReferrable.findCommonRelationships(XReferrable that)
Set<unificationXref>	XReferrable.findCommonUnifications(XReferrable that)