Methods for analyzing and manipulating AFPChains and for other pairwise alignment utilities.
A utility class that provides easy access to Structure objects.
Utilities for autoconfiguring javabeans based on command line arguments.
Utilities for working with collections.
A class that manages the Strings that are defined in the spice.properties file.
Calculates the rotation axis for an alignment A superposition of two structures is generally represented as a rotation matrix plus a translation vector.
A class that takes care about opening URLConnections and sets the proper timeouts
A container to persist config to the file system
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