Uses of Interface
uk.ac.roslin.ensembl.model.core.CollectionSpecies

Packages that use CollectionSpecies

Package	Description
uk.ac.roslin.ensembl.dao.database
uk.ac.roslin.ensembl.dao.database.factory
uk.ac.roslin.ensembl.dao.factory
uk.ac.roslin.ensembl.model.core
uk.ac.roslin.ensembl.model.database

Uses of CollectionSpecies in uk.ac.roslin.ensembl.dao.database

Classes in uk.ac.roslin.ensembl.dao.database that implement CollectionSpecies

Modifier and Type	Class and Description
class	DBCollectionSpecies

Methods in uk.ac.roslin.ensembl.dao.database that return types with arguments of type CollectionSpecies

Modifier and Type	Method and Description
Set<? extends CollectionSpecies>	DBRegistry.getBacterialSpeciesForAliasBeginning(String alias)
Set<? extends CollectionSpecies>	DBRegistry.getBacterialSpeciesForAliasContaining(String alias)
Set<? extends CollectionSpecies>	DBRegistry.getOldStyleBacterialSpeciesForAliasBeginning(String alias)
Set<? extends CollectionSpecies>	DBRegistry.getOldStyleBacterialSpeciesForAliasContaining(String alias)

Methods in uk.ac.roslin.ensembl.dao.database with parameters of type CollectionSpecies

Modifier and Type	Method and Description
void	DBCollection.addSpecies(CollectionSpecies sp)
String	DBCollectionCoreDatabase.getAssemblyAccession(CollectionSpecies species) Returns the AssemblyAccession value for this species.
String	DBCollectionCoreDatabase.getAssemblyName(CollectionSpecies species) Returns the AssemblyName value for this species.
HashMap<FeatureType,String>	DBCollectionCoreDatabase.getBuildLevels(CollectionSpecies species)

Method parameters in uk.ac.roslin.ensembl.dao.database with type arguments of type CollectionSpecies

Modifier and Type	Method and Description
void	DBCollection.addSpecies(Collection<? extends CollectionSpecies> spp)

Uses of CollectionSpecies in uk.ac.roslin.ensembl.dao.database.factory

Methods in uk.ac.roslin.ensembl.dao.database.factory with parameters of type CollectionSpecies

Modifier and Type	Method and Description
static DBDAOCollectionFactory	DBDAOCollectionFactory.makeFactory(CollectionDatabase database, CollectionSpecies species)

Constructors in uk.ac.roslin.ensembl.dao.database.factory with parameters of type CollectionSpecies

Constructor and Description
DBDAOCollectionCoreFactory(CollectionDatabase database, CollectionSpecies species)
DBDAOCollectionFactory(CollectionDatabase database, CollectionSpecies species)
DBDAOCollectionFuncgenFactory(CollectionDatabase database, CollectionSpecies species)
DBDAOCollectionVariationFactory(CollectionDatabase database, CollectionSpecies species)
DBDAOSpeciesFactory(CollectionDatabase database, CollectionSpecies species)

Uses of CollectionSpecies in uk.ac.roslin.ensembl.dao.factory

Methods in uk.ac.roslin.ensembl.dao.factory that return CollectionSpecies

Modifier and Type	Method and Description
CollectionSpecies	DAOCollectionFactory.getSpecies()

Uses of CollectionSpecies in uk.ac.roslin.ensembl.model.core

Methods in uk.ac.roslin.ensembl.model.core that return types with arguments of type CollectionSpecies

Modifier and Type	Method and Description
TreeSet<? extends CollectionSpecies>	CollectionOfSpecies.getSpecies()

Methods in uk.ac.roslin.ensembl.model.core with parameters of type CollectionSpecies

Modifier and Type	Method and Description
void	CollectionOfSpecies.addSpecies(CollectionSpecies sp)

Method parameters in uk.ac.roslin.ensembl.model.core with type arguments of type CollectionSpecies

Modifier and Type	Method and Description
void	CollectionOfSpecies.addSpecies(Collection<? extends CollectionSpecies> spp)

Uses of CollectionSpecies in uk.ac.roslin.ensembl.model.database

Methods in uk.ac.roslin.ensembl.model.database that return types with arguments of type CollectionSpecies

Modifier and Type	Method and Description
Set<? extends CollectionSpecies>	Registry.getBacterialSpeciesForAliasBeginning(String alias)
Set<? extends CollectionSpecies>	Registry.getBacterialSpeciesForAliasContaining(String alias)
Collection<? extends CollectionSpecies>	Registry.getCollectionSpecies()
Set<? extends CollectionSpecies>	Registry.getOldStyleBacterialSpeciesForAliasBeginning(String alias)
Set<? extends CollectionSpecies>	Registry.getOldStyleBacterialSpeciesForAliasContaining(String alias)

Methods in uk.ac.roslin.ensembl.model.database with parameters of type CollectionSpecies

Modifier and Type	Method and Description
String	CollectionCoreDatabase.getAssemblyAccession(CollectionSpecies species)
String	CollectionCoreDatabase.getAssemblyName(CollectionSpecies species)