Name | Description | Type | Package | Framework |
AFPAlignmentDisplay | Class | org.biojava.nbio.structure.align.util | BioJava | |
AFPChainScorer | Class | org.biojava.nbio.structure.align.util | BioJava | |
AlignmentTools | Methods for analyzing and manipulating AFPChains and for other pairwise alignment utilities. | Class | org.biojava.nbio.structure.align.util | BioJava |
AlignmentTools .IdentityMap | A Map can be viewed as a function from K to V. | Class | org.biojava.nbio.structure.align.util | BioJava |
AtomCache | A utility class that provides easy access to Structure objects. | Class | org.biojava.nbio.structure.align.util | BioJava |
CacheFactory | provides a SoftHashMap singleton. | Class | org.biojava.nbio.structure.align.util | BioJava |
CliTools | Utilities for autoconfiguring javabeans based on command line arguments. | Class | org.biojava.nbio.structure.align.util | BioJava |
CollectionTools | Utilities for working with collections. | Class | org.biojava.nbio.structure.align.util | BioJava |
ConfigurationException | Class | org.biojava.nbio.structure.align.util | BioJava | |
HTTPConnectionTools | a class that takes care about opening HttpURLConnections and sets the proper timeoutsSince:9:58:25 AMVersion:%I% %G%Author:Andreas Prlic | Class | org.biojava.nbio.structure.align.util | BioJava |
ResourceManager | A class that manages the Strings that are defined in the spice. | Class | org.biojava.nbio.structure.align.util | BioJava |
RotationAxis | Calculates the rotation axis for an alignment A superposition of two structures is generally represented as a rotation | Class | org.biojava.nbio.structure.align.util | BioJava |
SynchronizedOutFile | Class | org.biojava.nbio.structure.align.util | BioJava | |
UserConfiguration | A container to persist config to the file systemAuthor:Andreas Prlic | Class | org.biojava.nbio.structure.align.util | BioJava |