org.sStu
Interface AlignmentRangeAligner

All Superinterfaces:
Aligner, ScoreOnlyAligner

public interface AlignmentRangeAligner
extends ScoreOnlyAligner

Defines a most comprehensive (but slowest) alingner able to return the range of suboptimal alignments when required.

Author:
Audrius Meskauskas
See Also:
http://www.gnu.org/licenses/gpl.txt

Method Summary
 Alignment[] getAlignments()
          Get the alignments.
 
Methods inherited from interface org.sStu.ScoreOnlyAligner
getAlignmentScore
 
Methods inherited from interface org.sStu.Aligner
align, setSequence
 

Method Detail

getAlignments

public Alignment[] getAlignments()
Get the alignments. Must be called after align() was called.

Returns:
The sorted array of alignments (higher scores first).