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High Performance MD, highly flexible, Python scriptable Free open source MIT: OpenMM: Orac: No No Yes Yes No Yes No Yes No Molecular dynamics simulation program to explore free energy surfaces in biomolecular systems at the atomic level Free open source: Orac download page: NAMD + VMD: Yes Yes Yes Yes No Yes I Yes Yes Fast, parallel MD, CUDA
VisSim - system simulation and optional C-code generation of electrical, process, control, bio-medical, mechanical and UML State chart systems. Vortex (software) - a complete simulation platform featuring a realtime physics engine for rigid body dynamics, an image generator, desktop tools (Editor and Player) and more. Also available as Vortex ...
Molecular dynamics (MD) is a computer simulation method for analyzing the physical movements of atoms and molecules. The atoms and molecules are allowed to interact for a fixed period of time, giving a view of the dynamic "evolution" of the system.
The molecular mechanics calculations cover model building, energy optimizations and molecular dynamics. Firefly (formerly named PC GAMESS) [3] [4] [5] covers a wide range of quantum chemistry methods. Ascalaph Designer is free and open-source software, released under the GNU General Public License, version 2 (GPLv2). [6]
Desmond can also be used to perform absolute and relative free energy calculations (e.g., free energy perturbation). Other simulation methods (such as replica exchange) are supported through a plug-in-based infrastructure, which also allows users to develop their own simulation algorithms and models.
The direct simulation Monte Carlo algorithm is like molecular dynamics in that the state of the system is given by the positions and velocities of the particles, {,}, for =, …,. Unlike molecular dynamics, each particle in a DSMC simulation represents F N {\displaystyle F_{N}} molecules in the physical system that have roughly the same ...
Q is a computer software package for molecular dynamics (MD) simulation (current release: Q6). Unlike other MD codes, it has specialized since its conception (Marelius et al. 1998) on three specific types of free energy calculations.
Car–Parrinello molecular dynamics or CPMD refers to either a method used in molecular dynamics (also known as the Car–Parrinello method) or the computational chemistry software package used to implement this method. [1] The CPMD method is one of the major methods for calculating ab-initio molecular dynamics (ab-initio MD or AIMD).