Ensembl Model v1.09
© Roslin Institute 2010. GNU General Public License, version3
Ensembl Model
v1.09

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

All Superinterfaces:
org.biojava3.core.sequence.template.Accessioned, AssembledDNASequence, CoreObject, DNASequence, IdentifiableObject, Iterable<org.biojava3.core.sequence.compound.NucleotideCompound>, MappableObject, org.biojava3.core.sequence.template.Sequence<org.biojava3.core.sequence.compound.NucleotideCompound>, Serializable

public interface Chromosome
extends AssembledDNASequence

Author:
paterson

Method Summary
 String getChromosomeName()
           
 HashMap<? extends DNASequence,? extends MappingSet> getRegionsOfConservedSynteny(Coordinate range, Species target)
           
 void setChromosomeName(String name)
           
 
Methods inherited from interface uk.ac.roslin.ensembl.model.core.AssembledDNASequence
getCompleteAssembly
 
Methods inherited from interface uk.ac.roslin.ensembl.model.core.DNASequence
getCoordSystem, getDBSeqLength, getGenesOnRegion, getGenesOnRegion, getGenesOnRegion, getMappedRegions, getName, getObjectTypeMappings, getReverseComplementSequenceAsString, getReverseComplementSequenceAsString, getSequenceAsString, setCoordSystem, setDBSeqLength, setName
 
Methods inherited from interface uk.ac.roslin.ensembl.model.core.CoreObject
getAssembly, getSpecies, setSpecies
 
Methods inherited from interface uk.ac.roslin.ensembl.model.MappableObject
addMapping, clearAllMappings, getMappings, getMappings
 
Methods inherited from interface uk.ac.roslin.ensembl.model.IdentifiableObject
getDBVersion, getHashID, getId, getSchemaVersion, getType, setId
 
Methods inherited from interface org.biojava3.core.sequence.template.Sequence
countCompounds, getAsList, getCompoundAt, getCompoundSet, getIndexOf, getInverse, getLastIndexOf, getLength, getSequenceAsString, getSubSequence
 
Methods inherited from interface java.lang.Iterable
iterator
 
Methods inherited from interface org.biojava3.core.sequence.template.Accessioned
getAccession
 

Method Detail

getChromosomeName

String getChromosomeName()

setChromosomeName

void setChromosomeName(String name)

getRegionsOfConservedSynteny

HashMap<? extends DNASequence,? extends MappingSet> getRegionsOfConservedSynteny(Coordinate range,
                                                                                 Species target)
                                                                                 throws DAOException
Throws:
DAOException

Ensembl Model
v1.09

Ensembl Model v1.09
© Roslin Institute 2010. GNU General Public License, version3