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)