Uses of Interface
org.biopax.paxtools.model.level3.Xref

Packages that use Xref

org.biopax.paxtools.controller
org.biopax.paxtools.impl.level3
org.biopax.paxtools.model.level3

Uses of Xref in org.biopax.paxtools.controller

Method parameters in org.biopax.paxtools.controller with type arguments of type Xref

static java.lang.String	ModelUtils.generateURIForXref(java.lang.String db, java.lang.String id, java.lang.Class<? extends Xref> type) Builds a "normalized" RelationshipXref URI.
java.util.Set<java.lang.String>	ModelUtils.getByXref(java.util.Set<? extends Xref> xrefs, java.lang.Class<? extends XReferrable> clazz) This is a special (not always applicable) utility method.
static java.lang.String	ModelUtils.uriPrefixForGeneratedXref(java.lang.Class<? extends Xref> clazz) This is to consistently create URI prefixes for auto-generated/inferred Xref objects (except for PublicationXref, where creating of something like, e.g., 'urn:miriam:pubmed:' is recommended).

Uses of Xref in org.biopax.paxtools.impl.level3

Classes in org.biopax.paxtools.impl.level3 that implement Xref

class	PublicationXrefImpl
class	RelationshipXrefImpl
class	UnificationXrefImpl
class	XrefImpl

Methods in org.biopax.paxtools.impl.level3 that return types with arguments of type Xref

java.util.Set<Xref>

XReferrableImpl.getXref()

Methods in org.biopax.paxtools.impl.level3 with parameters of type Xref

void	XReferrableImpl.addXref(Xref xref)
void	XReferrableImpl.removeXref(Xref xref)

Method parameters in org.biopax.paxtools.impl.level3 with type arguments of type Xref

protected void

XReferrableImpl.setXref(java.util.Set<Xref> xref)

Uses of Xref in org.biopax.paxtools.model.level3

Subinterfaces of Xref in org.biopax.paxtools.model.level3

interface	PublicationXref
interface	RelationshipXref Definition: An xref that defines a reference to an entity in an external resource that does not have the same biological identity as the referring entity.
interface	UnificationXref Definition: A unification xref defines a reference to an entity in an external resource that has the same biological identity as the referring entity Rationale: Unification xrefs are critically important for data integration.

Methods in org.biopax.paxtools.model.level3 that return types with arguments of type Xref

java.util.Set<Xref>

XReferrable.getXref()

Methods in org.biopax.paxtools.model.level3 with parameters of type Xref

void	XReferrable.addXref(Xref xref)
void	XReferrable.removeXref(Xref xref)