ProfilePair (biojava 6.0.0 API)

Type Parameters:

S - each element of an alignment Profile is of type S

C - each element of an AlignedSequence is a Compound 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 of Profiles.

Author:

Mark Chapman, Paolo Pavan

Nested Class Summary
- Nested classes/interfaces inherited from interface org.biojava.nbio.core.alignment.template.Profile
  Profile.StringFormat

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 java.lang.Iterable
forEach, iterator, spliterator

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

- Method Detail
  - getQuery
```
Profile<S,C> getQuery()
```
    Returns the first Profile of the pair.
    
    Returns:
    
    the first Profile of the pair
  - getTarget
```
Profile<S,C> getTarget()
```
    Returns the second Profile of the pair.
    
    Returns:
    
    the second Profile of the pair