Package org.biojava.nbio.alignment.template

Interface PartitionRefiner<S extends Sequence<C>,C extends Compound>

Type Parameters:
S - each element of the alignment Profile is of type S
C - each element of an AlignedSequence is a Compound of type C
All Superinterfaces:
Aligner<S,C>, ProfileProfileScorer<S,C>, Scorer
public interface PartitionRefiner<S extends Sequence<C>,C extends Compound> extends Aligner<S,C>, ProfileProfileScorer<S,C>
Defines an algorithm which computes a new alignment Profile by splitting a current alignment and realigning.
Author:
Mark Chapman

  • Method Details

    • getProfileProfileAligner

      Alignments.ProfileProfileAlignerType getProfileProfileAligner()
      Returns class type of profile-profile alignment subroutine.
      Returns:
      class type of profile-profile alignment subroutine