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

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

Package	Description
org.biojava.nbio.structure.align	Classes for the alignment of structures.
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.quaternary
org.biojava.nbio.structure.align.xml	Serialization and deserialization for structure alignment results (as AFPChain object) to XML.
org.biojava.nbio.structure.cluster
org.biojava.nbio.structure.symmetry.internal
org.biojava.nbio.structure.symmetry.utils

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

Class	Description
MultipleAlignment	A MultipleAlignment is a Data Structure to store the core information of a multiple structure alignment, as a return type.

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

Class	Description
AbstractScoresCache	Abstact implementation of the ScoresCache with the shared code used in all objects with a variables cache.
Block	A Block is a Data Structure that stores aligned positions of a MultipleAlignment with the condition that residues are in a sequential order.
BlockImpl	General implementation of a Block that supports any type of sequential alignment with gaps.
BlockSet	A BlockSet is a Data Structure to store a flexible alignment part of a multiple alignment.
BlockSetImpl	A general implementation of a BlockSet to store a flexible part of a multiple alignment.
MultipleAlignment	A MultipleAlignment is a Data Structure to store the core information of a multiple structure alignment, as a return type.
MultipleAlignmentEnsemble	A MultipleAlignmentEnsemble is a collection of MultipleAlignments that share the same structures (Atoms) and creation properties (algorithm, version, creation time, etc.).
MultipleAlignmentEnsembleImpl	A general implementation of a MultipleAlignmentEnsemble.
MultipleAlignmentImpl	A general implementation of a MultipleAlignment.
ScoresCache	Interface for classes which implement a temporary cache for various numeric scores, e.g.

Classes in org.biojava.nbio.structure.align.multiple used by org.biojava.nbio.structure.align.multiple.mc

Class	Description
MultipleAlignment	A MultipleAlignment is a Data Structure to store the core information of a multiple structure alignment, as a return type.

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

Class	Description
Block	A Block is a Data Structure that stores aligned positions of a MultipleAlignment with the condition that residues are in a sequential order.
MultipleAlignment	A MultipleAlignment is a Data Structure to store the core information of a multiple structure alignment, as a return type.
MultipleAlignmentEnsemble	A MultipleAlignmentEnsemble is a collection of MultipleAlignments that share the same structures (Atoms) and creation properties (algorithm, version, creation time, etc.).

Classes in org.biojava.nbio.structure.align.multiple used by org.biojava.nbio.structure.align.quaternary

Class	Description
MultipleAlignment	A MultipleAlignment is a Data Structure to store the core information of a multiple structure alignment, as a return type.

Classes in org.biojava.nbio.structure.align.multiple used by org.biojava.nbio.structure.align.xml

Class	Description
Block	A Block is a Data Structure that stores aligned positions of a MultipleAlignment with the condition that residues are in a sequential order.
BlockSet	A BlockSet is a Data Structure to store a flexible alignment part of a multiple alignment.
MultipleAlignment	A MultipleAlignment is a Data Structure to store the core information of a multiple structure alignment, as a return type.
MultipleAlignmentEnsemble	A MultipleAlignmentEnsemble is a collection of MultipleAlignments that share the same structures (Atoms) and creation properties (algorithm, version, creation time, etc.).
ScoresCache	Interface for classes which implement a temporary cache for various numeric scores, e.g.

Classes in org.biojava.nbio.structure.align.multiple used by org.biojava.nbio.structure.cluster

Class	Description
MultipleAlignment	A MultipleAlignment is a Data Structure to store the core information of a multiple structure alignment, as a return type.

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

Class	Description
MultipleAlignment	A MultipleAlignment is a Data Structure to store the core information of a multiple structure alignment, as a return type.

Classes in org.biojava.nbio.structure.align.multiple used by org.biojava.nbio.structure.symmetry.utils

Class	Description
MultipleAlignment	A MultipleAlignment is a Data Structure to store the core information of a multiple structure alignment, as a return type.