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

Packages that use Chromosome

Package	Description
uk.ac.roslin.ensembl.dao.coreaccess
uk.ac.roslin.ensembl.dao.database.coreaccess
uk.ac.roslin.ensembl.datasourceaware.core
uk.ac.roslin.ensembl.datasourceaware.variation
uk.ac.roslin.ensembl.model.core
uk.ac.roslin.ensembl.model.database

Uses of Chromosome in uk.ac.roslin.ensembl.dao.coreaccess

Methods in uk.ac.roslin.ensembl.dao.coreaccess that return Chromosome

Modifier and Type	Method and Description
Chromosome	ChromosomeDAO.getChromosomeByName(String name)
Chromosome	ChromosomeDAO.getSexLinkedChromosome(Chromosome chr)

Methods in uk.ac.roslin.ensembl.dao.coreaccess that return types with arguments of type Chromosome

Modifier and Type	Method and Description
List<? extends Chromosome>	ChromosomeDAO.getChromosomes()

Methods in uk.ac.roslin.ensembl.dao.coreaccess with parameters of type Chromosome

Modifier and Type	Method and Description
MappingSet	AssemblyDAO.getPARMappingsByStartStop(Chromosome chr, Integer start, Integer stop)
Chromosome	ChromosomeDAO.getSexLinkedChromosome(Chromosome chr)

Method parameters in uk.ac.roslin.ensembl.dao.coreaccess with type arguments of type Chromosome

Modifier and Type	Method and Description
void	ChromosomeDAO.setAssemblyExceptions(TreeMap<String,? extends Chromosome> chrs)

Uses of Chromosome in uk.ac.roslin.ensembl.dao.database.coreaccess

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

Modifier and Type	Method and Description
MappingSet	DBAssemblyDAO.getPARMappingsByStartStop(Chromosome chr, Integer begin, Integer stop)
DAChromosome	DBChromosomeDAO.getSexLinkedChromosome(Chromosome chr)

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

Modifier and Type	Method and Description
void	DBChromosomeDAO.setAssemblyExceptions(TreeMap<String,? extends Chromosome> chrs)

Uses of Chromosome in uk.ac.roslin.ensembl.datasourceaware.core

Classes in uk.ac.roslin.ensembl.datasourceaware.core that implement Chromosome

Modifier and Type	Class and Description
class	DAChromosome A DAChromosome is a particular type of DAAssembledDNASequence for representing whole chromosomes.

Methods in uk.ac.roslin.ensembl.datasourceaware.core with parameters of type Chromosome

Modifier and Type	Method and Description
Mapping	DAFeature.getChromosomeMapping(Chromosome chr) Utility method to pull back a single mapping of this Feature on a Given chromosome.

Uses of Chromosome in uk.ac.roslin.ensembl.datasourceaware.variation

Methods in uk.ac.roslin.ensembl.datasourceaware.variation with parameters of type Chromosome

Modifier and Type	Method and Description
Mapping	DAVariation.getChromosomeMapping(Chromosome chr) Utility method to pull back a single mapping of this Feature on a Given chromosome.

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

Methods in uk.ac.roslin.ensembl.model.core that return Chromosome

Modifier and Type	Method and Description
Chromosome	Species.getChromosomeByName(String name)
Chromosome	Species.getChromosomeByName(String name, String dbVersion)
Chromosome	Chromosome.getParChromosome()

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

Modifier and Type	Method and Description
TreeMap<String,? extends Chromosome>	Species.getChromosomes()
TreeMap<String,? extends Chromosome>	Species.getChromosomes(String dbVersion)

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

Modifier and Type	Method and Description
Mapping	Feature.getChromosomeMapping(Chromosome chr)

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

Methods in uk.ac.roslin.ensembl.model.database that return Chromosome

Modifier and Type	Method and Description
Chromosome	CollectionCoreDatabase.getChromosomeByName(Species species, String name)
Chromosome	SingleSpeciesCoreDatabase.getChromosomeByName(String name)

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

Modifier and Type	Method and Description
List<? extends Chromosome>	SingleSpeciesCoreDatabase.getChromosomes()
List<? extends Chromosome>	CollectionCoreDatabase.getChromosomes(Species species)