Package ubic.gemma.model.genome

Class Chromosome

java.lang.Object

ubic.gemma.model.common.AbstractIdentifiable

ubic.gemma.model.genome.Chromosome

All Implemented Interfaces:

Identifiable

public class Chromosome
extends AbstractIdentifiable

Immutable representation of a chromosome

Constructor Summary

Constructors

Constructor	Description
Chromosome()	No-arg constructor added to satisfy javabean contract
Chromosome(String name, ExternalDatabase assemblyDatabase, BioSequence sequence, Taxon taxon)
Chromosome(String name, Taxon taxon)

Method Summary

Modifier and Type	Method	Description
boolean	equals(Object object)	Important note: Two objects with the same class and non-null ID must be considered equal.
ExternalDatabase	getAssemblyDatabase()
String	getName()
BioSequence	getSequence()
Taxon	getTaxon()
int	hashCode()	Important note: Never use the ID in the hashCode() implementation since it can be assigned when the object is persisted.
String	toString()

Methods inherited from class ubic.gemma.model.common.AbstractIdentifiable

getId, setId

Methods inherited from class java.lang.Object

clone, finalize, getClass, notify, notifyAll, wait, wait, wait

Constructor Detail

Chromosome

public Chromosome()

No-arg constructor added to satisfy javabean contract

Chromosome

public Chromosome(String name,
                  Taxon taxon)

Chromosome

public Chromosome(String name,
                  ExternalDatabase assemblyDatabase,
                  BioSequence sequence,
                  Taxon taxon)

Method Detail

getName

public String getName()

getAssemblyDatabase

public ExternalDatabase getAssemblyDatabase()

Returns:

The database where we have the assesmbly of the chromosome, such as the GoldenPath.

getSequence

public BioSequence getSequence()

Returns:

The sequence of the chromosome. This is typically going to be just a reference to the sequence in an external database.

getTaxon

public Taxon getTaxon()

hashCode

public int hashCode()

Description copied from class: AbstractIdentifiable

Important note: Never use the ID in the hashCode() implementation since it can be assigned when the object is persisted.

Specified by:

hashCode in class AbstractIdentifiable

equals

public boolean equals(Object object)

Description copied from class: AbstractIdentifiable

Important note: Two objects with the same class and non-null ID must be considered equal. If one or both IDs are nulls, the rest of the state can be used to determine equality.

Specified by:

equals in class AbstractIdentifiable

toString

public String toString()

Overrides:

toString in class AbstractIdentifiable