Package ffx.algorithms.misc

@ParametersAreNonnullByDefault package ffx.algorithms.misc

The Misc package contains a few miscellaneous algorithms.

Since:

1.0

Related Packages

Package	Description
ffx.algorithms	The Algorithms package has support for local and global optimization, molecular dynamics simulations, and calculation of free energy differences.
ffx.algorithms.cli	The Algorithms CLI package defines options for PicoCLI command line scripts.
ffx.algorithms.dynamics	The Dynamics package implements molecular and stochastic dynamics using a pure Java code path and via OpenMM.
ffx.algorithms.mc	The MC package implements a variety of Monte Carlo moves for optimization and simulation algorithms.
ffx.algorithms.optimize	The Optimize package contains local and global optimization algorithms using pure Java and OpenMM code paths.
ffx.algorithms.thermodynamics	The Thermodynamics package computes free energy differences using Orthogonal Space Tempering (OST) sampling via pure Java or OpenMM (via Monte Carlo OST).

Classes

Class	Description
AlgorithmsTest	Base class for Algorithm tests.
GenerateRotamers	The GenerateRotamers class helps generate a rotamer library (particularly for nonstandard amino acids) for a Residue.