SmithWatermanAlignerInterface
in
Interface SmithWatermanAlignerInterface - finds the highest-scoring locally similar subsequence of two sequences under a linear gap penalty, rather than aligning them end to end.
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Table of Contents
Methods
Methods
align()
public
align(AbstractMolecularSequence $oFirst, AbstractMolecularSequence $oSecond, SubstitutionScoringInterface $oScoring, int $iGapPenalty) : PairwiseAlignmentResult
Parameters
- $oFirst : AbstractMolecularSequence
- $oSecond : AbstractMolecularSequence
- $oScoring : SubstitutionScoringInterface
- $iGapPenalty : int
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Strictly negative