Uses of Package
org.biojava.nbio.structure.align.util

Packages that use org.biojava.nbio.structure.align.util

Package	Description
org.biojava.nbio.structure	Interfaces and classes for protein structure (PDB).
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.gui
org.biojava.nbio.structure.align.seq
org.biojava.nbio.structure.align.util
org.biojava.nbio.structure.align.webstart	Classes related to Java Web Start
org.biojava.nbio.structure.cath
org.biojava.nbio.structure.domain
org.biojava.nbio.structure.ecod
org.biojava.nbio.structure.io	Input and Output of Structures
org.biojava.nbio.structure.io.mmtf
org.biojava.nbio.structure.scop	Parsers and API for SCOP, Structural Classification of Proteins.
org.biojava.nbio.structure.symmetry.internal

Classes in org.biojava.nbio.structure.align.util used by org.biojava.nbio.structure

Class and Description
AtomCache A utility class that provides easy access to Structure objects.

Classes in org.biojava.nbio.structure.align.util used by org.biojava.nbio.structure.align

Class and Description
AtomCache A utility class that provides easy access to Structure objects.
SynchronizedOutFile

Classes in org.biojava.nbio.structure.align.util used by org.biojava.nbio.structure.align.ce

Class and Description
ConfigurationException

Classes in org.biojava.nbio.structure.align.util used by org.biojava.nbio.structure.align.client

Class and Description
AtomCache A utility class that provides easy access to Structure objects.

Classes in org.biojava.nbio.structure.align.util used by org.biojava.nbio.structure.align.fatcat

Class and Description
ConfigurationException

Classes in org.biojava.nbio.structure.align.util used by org.biojava.nbio.structure.align.gui

Class and Description
UserConfiguration A container to persist config to the file system

Classes in org.biojava.nbio.structure.align.util used by org.biojava.nbio.structure.align.seq

Class and Description
ConfigurationException

Classes in org.biojava.nbio.structure.align.util used by org.biojava.nbio.structure.align.util

Class and Description
ConfigurationException
ResourceManager A class that manages the Strings that are defined in the spice.properties file.
UserConfiguration A container to persist config to the file system

Classes in org.biojava.nbio.structure.align.util used by org.biojava.nbio.structure.align.webstart

Class and Description
UserConfiguration A container to persist config to the file system

Classes in org.biojava.nbio.structure.align.util used by org.biojava.nbio.structure.cath

Class and Description
AtomCache A utility class that provides easy access to Structure objects.

Classes in org.biojava.nbio.structure.align.util used by org.biojava.nbio.structure.domain

Class and Description
AtomCache A utility class that provides easy access to Structure objects.

Classes in org.biojava.nbio.structure.align.util used by org.biojava.nbio.structure.ecod

Class and Description
AtomCache A utility class that provides easy access to Structure objects.

Classes in org.biojava.nbio.structure.align.util used by org.biojava.nbio.structure.io

Class and Description
AtomCache A utility class that provides easy access to Structure objects.

Classes in org.biojava.nbio.structure.align.util used by org.biojava.nbio.structure.io.mmtf

Class and Description
AtomCache A utility class that provides easy access to Structure objects.

Classes in org.biojava.nbio.structure.align.util used by org.biojava.nbio.structure.scop

Class and Description
AtomCache A utility class that provides easy access to Structure objects.

Classes in org.biojava.nbio.structure.align.util used by org.biojava.nbio.structure.symmetry.internal

Class and Description
RotationAxis Calculates the rotation axis for an alignment A superposition of two structures is generally represented as a rotation matrix plus a translation vector.