Paper Citing NAMD - Abstract
Skeel, R.D.; Tezcan, I.; Hardy, D.J.
Multiple grid methods for classical molecular dynamics
JOURNAL OF COMPUTATIONAL CHEMISTRY, 23:673-684, APR 30 2002
Presented in the context of classical molecular mechanics and dynamics are multilevel summation methods for the fast calculation of energies/forces for pairwise interactions, which are based on the hierarchical interpolation of interaction potentials on multiple grids. The concepts and details underlying multigrid interpolation are described. For integration of molecular dynamics the use of different time steps for different interactions allows longer time steps for many of the interactions, and this can be combined with multiple grids in space. Comparison is made to the fast multipole method, and evidence is presented suggesting that for molecular simulations multigrid methods may be superior to the fast multipole method and other tree methods. (C) 2002 Wiley Periodicals, Inc.
