S
- each Sequence
of the alignment pair is of type SC
- each element of a Sequence is a Compound
of type CScorer
PairInProfileScorer<S,C>
, PairwiseSequenceAligner<S,C>
AbstractPairwiseSequenceAligner
, AnchoredPairwiseSequenceAligner
, FractionalIdentityInProfileScorer
, FractionalIdentityScorer
, FractionalSimilarityInProfileScorer
, FractionalSimilarityScorer
, GuanUberbacher
, NeedlemanWunsch
, SmithWaterman
, SubstitutionMatrixScorer
public interface PairwiseSequenceScorer<S extends Sequence<C>,C extends Compound> extends Scorer
Modifier and Type | Method | Description |
---|---|---|
S |
getQuery() |
Returns the first sequence of the pair.
|
S |
getTarget() |
Returns the second sequence of the pair.
|
getDistance, getDistance, getMaxScore, getMinScore, getScore, getSimilarity, getSimilarity