Packages

Package	Description
demo
org.biojava.nbio.structure
org.biojava.nbio.structure.align	Classes for the alignment of structures.
org.biojava.nbio.structure.align.ce	Classes related to the implementation of the CE alignment algorithm, here called jCE.
org.biojava.nbio.structure.align.client	This package deals with the server communication for auto-downloading pre-calculated alignments.
org.biojava.nbio.structure.align.fatcat	Classes related to the implementation of the FATCAT alignment algorithm, here called jFATCAT.
org.biojava.nbio.structure.align.fatcat.calc
org.biojava.nbio.structure.align.helper	Helper classes for structural alignment.
org.biojava.nbio.structure.align.model
org.biojava.nbio.structure.align.multiple
org.biojava.nbio.structure.align.multiple.mc
org.biojava.nbio.structure.align.multiple.util
org.biojava.nbio.structure.align.pairwise	Classes for the pairwise alignment of structures.
org.biojava.nbio.structure.align.quaternary
org.biojava.nbio.structure.align.seq
org.biojava.nbio.structure.align.util
org.biojava.nbio.structure.align.xml	Serialization and deserialization for structure alignment results (as AFPChain object) to XML.
org.biojava.nbio.structure.asa
org.biojava.nbio.structure.basepairs
org.biojava.nbio.structure.cath
org.biojava.nbio.structure.chem
org.biojava.nbio.structure.cluster
org.biojava.nbio.structure.contact
org.biojava.nbio.structure.domain
org.biojava.nbio.structure.domain.pdp
org.biojava.nbio.structure.ecod
org.biojava.nbio.structure.geometry
org.biojava.nbio.structure.io	Input and Output of Structures
org.biojava.nbio.structure.io.cif
org.biojava.nbio.structure.io.mmtf
org.biojava.nbio.structure.io.sifts
org.biojava.nbio.structure.io.util
org.biojava.nbio.structure.jama	Matrix package for from JAMA
org.biojava.nbio.structure.math
org.biojava.nbio.structure.quaternary
org.biojava.nbio.structure.scop	Parsers and API for SCOP, Structural Classification of Proteins.
org.biojava.nbio.structure.secstruc
org.biojava.nbio.structure.symmetry.axis
org.biojava.nbio.structure.symmetry.core
org.biojava.nbio.structure.symmetry.geometry
org.biojava.nbio.structure.symmetry.internal
org.biojava.nbio.structure.symmetry.misc
org.biojava.nbio.structure.symmetry.utils
org.biojava.nbio.structure.xtal
org.biojava.nbio.structure.xtal.io