Uses of Class
org.biojava.bio.alignment.AlignmentPair
Packages that use AlignmentPair
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Uses of AlignmentPair in org.biojava.bio.alignment
Methods in org.biojava.bio.alignment that return AlignmentPairModifier and TypeMethodDescriptionstatic AlignmentPair
AlignmentPair.align
(Sequence query, Sequence subject, AlignmentAlgorithm algorithm) abstract AlignmentPair
AlignmentAlgorithm.pairwiseAlignment
(SymbolList query, SymbolList subject) Performs a pairwise sequence alignment of the two given sequences.NeedlemanWunsch.pairwiseAlignment
(SymbolList query, SymbolList subject) Global pairwise sequence alignment of two BioJava-Sequence objects according to the Needleman-Wunsch-algorithm.SmithWaterman.pairwiseAlignment
(SymbolList query, SymbolList subject) Overrides the method inherited from the NeedlemanWunsch and performs only a local alignment.Methods in org.biojava.bio.alignment that return types with arguments of type AlignmentPairModifier and TypeMethodDescriptionAlignmentAlgorithm.alignAll
(SequenceIterator source, SequenceDB subjectDB)