## Uses of Class
org.biojava.bio.structure.align.pairwise.AlternativeAlignment

Packages that use AlternativeAlignment
org.biojava.bio.structure.align: Classes for the super-imposition of structures.

Uses of AlternativeAlignment in org.biojava.bio.structure.align

Methods in org.biojava.bio.structure.align that return AlternativeAlignment
`AlternativeAlignment[]` `StructurePairAligner.getAlignments()` return the alternative alignments that can be found for the two structures

Methods in org.biojava.bio.structure.align with parameters of type AlternativeAlignment
`static void` `ClusterAltAligs.cluster(AlternativeAlignment[] aligs)`
`static void` `ClusterAltAligs.cluster(AlternativeAlignment[] aligs, int cutoff)`