Stochastic-dynamical thermostats for constraints and stiff restraints

Janis Bajars, Jason Frank, Benedict Leimkuhler

Research output: Contribution to journalArticlepeer-review

Abstract

A broad array of canonical sampling methods are available for molecular simulation based on stochastic-dynamical perturbation of Newtonian dynamics, including Langevin dynamics, Stochastic Velo- city Rescaling, and methods that combine Nosé-Hoover dynamics with stochastic perturbation. In this article we discuss several stochastic-dynamical thermostats in the setting of simulating systems with holonomic constraints. The approaches described are easily implemented and facilitate the recovery of correct canonical averages with minimal disturbance of the underlying dynamics. For the purpose of illustrating our results, we examine the numerical application of these methods to a simple atomic chain, where a Fixman term is required to correct the thermodynamic ensemble.
Original languageEnglish
Pages (from-to)131-152
JournalEuropean Physical Journal - Special Topics
Volume200
DOIs
Publication statusPublished - 2011

Fingerprint

Dive into the research topics of 'Stochastic-dynamical thermostats for constraints and stiff restraints'. Together they form a unique fingerprint.

Cite this