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- Type Parameters:
S
- eachSequence
in the pair of alignmentProfile
s is of type SC
- each element of anAlignedSequence
is aCompound
of type C
- All Superinterfaces:
Scorer
- All Known Subinterfaces:
PartitionRefiner<S,C>
,ProfileProfileAligner<S,C>
- All Known Implementing Classes:
AbstractProfileProfileAligner
,SimpleProfileProfileAligner
public interface ProfileProfileScorer<S extends Sequence<C>,C extends Compound> extends Scorer
Defines an algorithm which computes a score for a pairing of alignment profiles.- Author:
- Mark Chapman
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Method Summary
All Methods Instance Methods Abstract Methods Modifier and Type Method Description Profile<S,C>
getQuery()
Returns the first profile of the pair.Profile<S,C>
getTarget()
Returns the second profile of the pair.-
Methods inherited from interface org.biojava.nbio.alignment.template.Scorer
getDistance, getDistance, getMaxScore, getMinScore, getScore, getSimilarity, getSimilarity
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