org.biojava3.alignment.template
Interface PairInProfileScorer<S extends Sequence<C>,C extends Compound>
- Type Parameters:
S
- each Sequence
of the alignment pair is of type SC
- each element of an AlignedSequence
is a Compound
of type C
- All Superinterfaces:
- PairwiseSequenceScorer<S,C>, Scorer
- All Known Implementing Classes:
- FractionalIdentityInProfileScorer, FractionalSimilarityInProfileScorer
public interface PairInProfileScorer<S extends Sequence<C>,C extends Compound>
- extends PairwiseSequenceScorer<S,C>
Defines an algorithm which computes a score for a sequence alignment pair picked from an alignment Profile
.
- Author:
- Mark Chapman
getProfile
Profile<S,C> getProfile()
- Returns the
Profile
from which the aligned pair originated.
- Returns:
- the original profile