Uses of Class
ubic.gemma.model.genome.Chromosome

Packages that use Chromosome

Package	Description
ubic.gemma.model.genome
ubic.gemma.model.genome.sequenceAnalysis
ubic.gemma.persistence.persister
ubic.gemma.persistence.service.genome
ubic.gemma.persistence.util

Uses of Chromosome in ubic.gemma.model.genome

Methods in ubic.gemma.model.genome that return Chromosome

Modifier and Type	Method	Description
Chromosome	ChromosomeLocation.getChromosome()

Methods in ubic.gemma.model.genome with parameters of type Chromosome

Modifier and Type	Method	Description
static PhysicalLocation	PhysicalLocation.Factory.newInstance(Chromosome chromosome)
static PhysicalLocation	PhysicalLocation.Factory.newInstance(Chromosome chromosome, Long nucleotide, Integer nucleotideLength, String strand, Integer bin)
void	ChromosomeLocation.setChromosome(Chromosome chromosome)

Uses of Chromosome in ubic.gemma.model.genome.sequenceAnalysis

Methods in ubic.gemma.model.genome.sequenceAnalysis that return Chromosome

Modifier and Type	Method	Description
Chromosome	SequenceSimilaritySearchResult.getTargetChromosome()

Methods in ubic.gemma.model.genome.sequenceAnalysis with parameters of type Chromosome

Modifier and Type	Method	Description
void	SequenceSimilaritySearchResult.setTargetChromosome(Chromosome targetChromosome)

Uses of Chromosome in ubic.gemma.persistence.persister

Methods in ubic.gemma.persistence.persister that return types with arguments of type Chromosome

Modifier and Type	Method	Description
Map<Integer,Chromosome>	AbstractPersister.Caches.getChromosomeCache()	Keys are custom hash codes.

Uses of Chromosome in ubic.gemma.persistence.service.genome

Methods in ubic.gemma.persistence.service.genome that return Chromosome

Modifier and Type	Method	Description
Chromosome	ChromosomeDaoImpl.find(Chromosome entity)

Methods in ubic.gemma.persistence.service.genome that return types with arguments of type Chromosome

Modifier and Type	Method	Description
Collection<Chromosome>	ChromosomeDao.find(String name, Taxon taxon)
Collection<Chromosome>	ChromosomeDaoImpl.find(String name, Taxon taxon)
Collection<Chromosome>	ChromosomeService.find(String name, Taxon taxon)	Locate by name e.g.
Collection<Chromosome>	ChromosomeServiceImpl.find(String name, Taxon taxon)

Methods in ubic.gemma.persistence.service.genome with parameters of type Chromosome

Modifier and Type	Method	Description
Chromosome	ChromosomeDaoImpl.find(Chromosome entity)
static boolean	ChromosomeUtils.isCanonical(Chromosome chr)	This method is only familiar with chromosomes as named in the UCSC GoldenPath database and would have to be modified if the 'rules' are broken by some other source used.

Uses of Chromosome in ubic.gemma.persistence.util

Methods in ubic.gemma.persistence.util with parameters of type Chromosome

Modifier and Type	Method	Description
static void	BusinessKey.addRestrictions(Criteria queryObject, Chromosome chromosome)
static void	BusinessKey.checkValidKey(Chromosome chromosome)