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

Packages that use BioSource

Package	Description
org.biopax.paxtools.controller	This package contains various methods and algorithms for traversing and manipulating the model.
org.biopax.paxtools.impl.level3	This package contains the default implementation for BioPAX Level 3.
org.biopax.paxtools.model.level3	This package contains the interfaces that maps classes defined in the BioPAX Level 3 specification.

Uses of BioSource in org.biopax.paxtools.controller

Methods in org.biopax.paxtools.controller that return types with arguments of type BioSource

Modifier and Type	Method	Description
static Set<BioSource>	ModelUtils.getOrganisms(BioPAXElement biopaxElement)	Collects BioSource objects from this or related elements (where it makes sense; though the biopax element might have no or empty 'organism' property at all.

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

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

Modifier and Type	Class	Description
class	BioSourceImpl

Methods in org.biopax.paxtools.impl.level3 that return BioSource

Modifier and Type	Method	Description
BioSource	GeneImpl.getOrganism()
BioSource	PathwayImpl.getOrganism()
BioSource	SequenceEntityReferenceImpl.getOrganism()

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

Modifier and Type	Method	Description
Class<? extends BioSource>	BioSourceImpl.getModelInterface()

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

Modifier and Type	Method	Description
void	GeneImpl.setOrganism(BioSource source)
void	PathwayImpl.setOrganism(BioSource organism)
void	SequenceEntityReferenceImpl.setOrganism(BioSource organism)

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

Methods in org.biopax.paxtools.model.level3 that return BioSource

Modifier and Type	Method	Description
BioSource	Gene.getOrganism()	An organism, e.g.
BioSource	Pathway.getOrganism()	An organism, e.g.
BioSource	SequenceEntityReference.getOrganism()	An organism, e.g.

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

Modifier and Type	Method	Description
void	Gene.setOrganism(BioSource source)	An organism, e.g.
void	Pathway.setOrganism(BioSource source)	An organism, e.g.
void	SequenceEntityReference.setOrganism(BioSource source)	An organism, e.g.