uk.ac.roslin.ensembl.dao.coreaccess

Interface DNASequenceDAO

All Known Implementing Classes:

DBDNASequenceDAO

public interface DNASequenceDAO

Author:

paterson

Method Summary

Methods

Modifier and Type	Method and Description
String	getFullSequence(EnsemblDNASequenceReader reader)
DNASequence	getSequenceByID(Integer id)
String	getSequenceByStartStop(EnsemblDNASequenceReader reader, Integer start, Integer stop)
DNASequence	getValidatedSequence(DNASequence seq)
List<? extends DNASequence>	getValidatedSequences(List<? extends DNASequence> sequences)

Method Detail

getSequenceByStartStop

String getSequenceByStartStop(EnsemblDNASequenceReader reader,
                            Integer start,
                            Integer stop)
                              throws DAOException

Throws:

DAOException

getFullSequence

String getFullSequence(EnsemblDNASequenceReader reader)
                       throws DAOException

Throws:

DAOException

getSequenceByID

DNASequence getSequenceByID(Integer id)
                            throws DAOException

Throws:

DAOException

getValidatedSequence

DNASequence getValidatedSequence(DNASequence seq)
                                 throws DAOException

Throws:

DAOException

getValidatedSequences

List<? extends DNASequence> getValidatedSequences(List<? extends DNASequence> sequences)
                                                  throws DAOException

Throws:

DAOException