Package org.biojava.nbio.core.sequence
Class StopCodonSequence
java.lang.Object
org.biojava.nbio.core.sequence.template.AbstractSequence<NucleotideCompound>
org.biojava.nbio.core.sequence.DNASequence
org.biojava.nbio.core.sequence.StopCodonSequence
- All Implemented Interfaces:
Iterable<NucleotideCompound>,Accessioned,Sequence<NucleotideCompound>
Used to map the stop codon sequence on a gene
- Author:
- Scooter Willis
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Nested Class Summary
Nested classes/interfaces inherited from class org.biojava.nbio.core.sequence.DNASequence
DNASequence.DNATypeNested classes/interfaces inherited from class org.biojava.nbio.core.sequence.template.AbstractSequence
AbstractSequence.AnnotationType -
Field Summary
Fields -
Constructor Summary
ConstructorsConstructorDescriptionStopCodonSequence(TranscriptSequence parentGeneSequence, int begin, int end) -
Method Summary
Methods inherited from class org.biojava.nbio.core.sequence.DNASequence
getComplement, getDNAType, getGCCount, getReverse, getReverseComplement, getRNASequence, getRNASequence, getRNASequence, getRNASequence, main, setDNATypeMethods inherited from class org.biojava.nbio.core.sequence.template.AbstractSequence
addFeature, addFeature, addNote, countCompounds, getAccession, getAnnotationType, getAsList, getBioBegin, getBioEnd, getCompoundAt, getCompoundSet, getDatabaseReferences, getDescription, getFeatureRetriever, getFeatures, getFeatures, getFeatures, getFeaturesByType, getFeaturesKeyWord, getIndexOf, getInverse, getLastIndexOf, getNotesList, getOriginalHeader, getParentSequence, getProxySequenceReader, getSequenceAsString, getSequenceAsString, getSequenceScore, getSource, getSubSequence, getTaxonomy, getUserCollection, iterator, removeFeature, removeNote, setAccession, setAnnotationType, setBioBegin, setBioEnd, setCompoundSet, setDatabaseReferences, setDescription, setFeatureRetriever, setFeaturesKeyWord, setNotesList, setOriginalHeader, setParentSequence, setProxySequenceReader, setSequenceScore, setSource, setTaxonomy, setUserCollection, toStringMethods inherited from class java.lang.Object
clone, equals, finalize, getClass, hashCode, notify, notifyAll, wait, wait, waitMethods inherited from interface java.lang.Iterable
forEach, spliterator
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Field Details
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parentGeneSequence
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Constructor Details
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StopCodonSequence
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Method Details
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getLength
public int getLength()Description copied from interface:SequenceReturns the length of the Sequence- Specified by:
getLengthin interfaceSequence<NucleotideCompound>- Overrides:
getLengthin classAbstractSequence<NucleotideCompound>
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