uk.ac.roslin.ensembl.biojava3

Interface EnsemblDNASequenceReader

All Superinterfaces:

Accessioned, Iterable<NucleotideCompound>, ProxySequenceReader<NucleotideCompound>, Sequence<NucleotideCompound>, SequenceReader<NucleotideCompound>, Serializable

All Known Implementing Classes:

DAEnsemblDNASequenceReader

public interface EnsemblDNASequenceReader
extends ProxySequenceReader<NucleotideCompound>, Serializable

Author:

paterson

Method Summary

Methods

Modifier and Type	Method and Description
Integer	getCoordSystemID()
Integer	getLengthInteger()
String	getName()
String	getReverseComplementSequenceAsString(Integer start, Integer end)
Integer	getSeqRegionID()
void	setCoordSystemID(Integer coordSystemID)
void	setLength(Integer length)
void	setName(String name)
void	setSeqRegionID(Integer seqRegionID)

Methods inherited from interface org.biojava3.core.sequence.template.SequenceReader

setCompoundSet, setContents

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

getName

String getName()

setName

void setName(String name)

getCoordSystemID

Integer getCoordSystemID()

setCoordSystemID

void setCoordSystemID(Integer coordSystemID)

getLengthInteger

Integer getLengthInteger()

setLength

void setLength(Integer length)

getSeqRegionID

Integer getSeqRegionID()

setSeqRegionID

void setSeqRegionID(Integer seqRegionID)

getReverseComplementSequenceAsString

String getReverseComplementSequenceAsString(Integer start,
                                          Integer end)