Uses of Package
ffx.algorithms.dynamics

Packages that use ffx.algorithms.dynamics

Package	Description
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.thermodynamics	The Thermodynamics package computes free energy differences using Orthogonal Space Tempering (OST) sampling via pure Java or OpenMM (via Monte Carlo OST).

Classes in ffx.algorithms.dynamics used by ffx.algorithms.cli

Class	Description
Barostat	The Barostat class maintains constant pressure using random trial moves in lattice parameters, which are consistent with the space group.
MDEngine	Enumerates available molecular dynamics engines; presently limited to the FFX reference engine and the OpenMM engine.
MolecularDynamics	Run NVE, NVT, or NPT molecular dynamics.

Classes in ffx.algorithms.dynamics used by ffx.algorithms.dynamics

Class	Description
MDEngine	Enumerates available molecular dynamics engines; presently limited to the FFX reference engine and the OpenMM engine.
MDVerbosity	Define the verbosity of the MolecularDynamics class.
MDWriteAction	Describe actions taken by writeFilesForStep.
MolecularDynamics	Run NVE, NVT, or NPT molecular dynamics.
MolecularDynamicsOpenMM	Runs Molecular Dynamics using OpenMM implementation

Classes in ffx.algorithms.dynamics used by ffx.algorithms.mc

Class	Description
MDVerbosity	Define the verbosity of the MolecularDynamics class.
MDWriteAction	Describe actions taken by writeFilesForStep.
MolecularDynamics	Run NVE, NVT, or NPT molecular dynamics.

Classes in ffx.algorithms.dynamics used by ffx.algorithms.thermodynamics

Class	Description
Barostat	The Barostat class maintains constant pressure using random trial moves in lattice parameters, which are consistent with the space group.
MolecularDynamics	Run NVE, NVT, or NPT molecular dynamics.