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).