Sequenceof the alignment pair is of type S
C- each element of an
Compoundof type C
public class FractionalSimilarityInProfileScorer<S extends Sequence<C>,C extends Compound> extends FractionalSimilarityScorer<S,C> implements PairInProfileScorer<S,C>
Profile. The reported score is the number of alignment columns which have similar
|Constructor and Description|
Creates a fractional similarity scorer for an aligned pair of sequences in the given alignment profile.
|Modifier and Type||Method and Description|
getMaxScore, getMinScore, getQuery, getScore, getTarget
getDistance, getDistance, getSimilarity, getSimilarity
clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait
public FractionalSimilarityInProfileScorer(Profile<S,C> profile, int query, int target)
profile- alignment profile containing pair of sequences
query- index in the profile of the first sequence of the pair
target- index in the profile of the second sequence of the pair
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