Package org.biojava.nbio.structure.align

Classes for the alignment of structures. This is the unpublished legacy implementation from the time, before BioJava supported CE and FATCAT alignments. See the StructurePairAligner for an example.

Interface Summary

Interface	Description
MultipleStructureAligner	Interface for the Multiple Structure Alignment Algorithms.
StructureAlignment

Class Summary

Class	Description
AbstractStructureAlignment
AFPTwister
BioJavaStructureAlignment	Wrapper for the BioJava Structure Alignment Implementation
CallableStructureAlignment
ClusterAltAligs	A class that clusters alternative alignments according to their similarity.
FarmJob	A job as it can be run on the farm.
MultiThreadedDBSearch	Performs a multi threaded database search for an input protein structure
StrucAligParameters	A class that contains all the parameters of the structure alignment algorithm.
StructureAlignmentFactory
StructurePairAligner	Perform a pairwise protein structure superimposition.