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Simbiome is a curated, online electronic resource that organizes and presents relevant resources for physics-based simulation of biomedical structures and related entities in biology and life sciences.
LAMMPS Molecular Dynamics Simulator
Large-scale Atomic/Molecular Massively Parallel Simulator
http://lammps.sandia.gov/
| Software: Simulation Application | |
In the most general sense, LAMMPS integrates Newton`s equations of motion for collections of atoms, molecules, or macroscopic particles that interact via short- or long-range forces with a variety of initial and/or boundary conditions. For computational efficiency LAMMPS uses neighbor lists to keep track of nearby particles. The lists are optimized for systems with particles that are repulsive at short distances, so that the local density of particles never becomes too large. On parallel machines, LAMMPS uses spatial-decomposition techniques to partition the simulation domain into small 3d sub-domains, one of which is assigned to each processor. Processors communicate and store "ghost" atom information for atoms that border their sub-domain. LAMMPS is most efficient (in a parallel sense) for systems whose particles fill a 3d rectangular box with roughly uniform density. | |
| Development Stage | 5 - Production/Stable |
| Keywords | |
| License | GNU General Public License (GPL) |
| Resources with Similar Function | |
| Related Resources | GROMACS TINKER Amber - Molecular Dynamics Amber Force Fields CHARMM NAMD NAST VMD Search Google |
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This work is licensed under a Creative Commons Attribution 2.5 License.