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- Type Parameters:
S
- each element of an alignmentProfile
is of type SC
- each element of anAlignedSequence
is aCompound
of type C
- All Superinterfaces:
Iterable<AlignedSequence<S,C>>
,Profile<S,C>
- All Known Subinterfaces:
MutableProfilePair<S,C>
- All Known Implementing Classes:
SimpleProfilePair
public interface ProfilePair<S extends Sequence<C>,C extends Compound> extends Profile<S,C>
Defines a data structure for the results of the alignment of a pair ofProfile
s.- Author:
- Mark Chapman, Paolo Pavan
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Nested Class Summary
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Nested classes/interfaces inherited from interface org.biojava.nbio.core.alignment.template.Profile
Profile.StringFormat
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Method Summary
All Methods Instance Methods Abstract Methods Modifier and Type Method Description Profile<S,C>
getQuery()
Returns the firstProfile
of the pair.Profile<S,C>
getTarget()
Returns the secondProfile
of the pair.-
Methods inherited from interface java.lang.Iterable
forEach, iterator, spliterator
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Methods inherited from interface org.biojava.nbio.core.alignment.template.Profile
getAlignedSequence, getAlignedSequence, getAlignedSequences, getAlignedSequences, getAlignedSequences, getCompoundAt, getCompoundAt, getCompoundCountsAt, getCompoundCountsAt, getCompoundsAt, getCompoundSet, getCompoundWeightsAt, getCompoundWeightsAt, getIndexOf, getIndicesAt, getLastIndexOf, getLength, getOriginalSequences, getSize, getSubProfile, hasGap, isCircular, toString, toString, toString
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