Abstract
This paper extends the results in [8] to stochastic differential equations (SDEs) arising in molecular dynamics. It implements a patch to explicit integrators that consists of a Metropolis-Hastings step. The 'patched integrator' preserves the SDE's equilibrium distribution and is accurate on finite time intervals. As a corollary this paper proves the integrator's accuracy in estimating finite-time dynamics along an infinitely long solution - a first in molecular dynamics. The paper also covers multiple time-steps, holonomic constraints and scalability. Finally, the paper provides numerical tests supporting the theory.
Original language | English (US) |
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Pages (from-to) | 2565-2580 |
Number of pages | 16 |
Journal | Journal of Computational Physics |
Volume | 231 |
Issue number | 6 |
DOIs | |
State | Published - Mar 20 2012 |
Keywords
- Metropolis-Hastings
- Molecular dynamics
- RATTLE
- RESPA
- Verlet
ASJC Scopus subject areas
- Numerical Analysis
- Modeling and Simulation
- Physics and Astronomy (miscellaneous)
- General Physics and Astronomy
- Computer Science Applications
- Computational Mathematics
- Applied Mathematics