A Gentle Stochastic Thermostat for Molecular Dynamics |
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Authors: | Ben Leimkuhler Emad Noorizadeh and Florian Theil |
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Institution: | (1) The Maxwell Institute and School of Mathematics, University of Edinburgh, Edinburgh, EH9 3JZ, UK;(2) Mathematics Institute, University of Warwick, Coventry, CV4 7AL, UK |
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Abstract: | We discuss a dynamical technique for sampling the canonical measure in molecular dynamics. We present a method that generalizes
a recently proposed scheme (Samoletov et al., J. Stat. Phys. 128:1321–1336, 2007), and which controls temperature by use of a device similar to that of Nosé dynamics, but adds random noise to improve ergodicity.
In contrast to Langevin dynamics, where noise is added directly to each physical degree of freedom, the new scheme relies
on an indirect coupling to a single Brownian particle. For a model with harmonic potentials, we show under a mild non-resonance
assumption that we can recover the canonical distribution. In spite of its stochastic nature, experiments suggest that it
introduces a relatively weak perturbative effect on the physical dynamics, as measured by perturbation of temporal autocorrelation
functions. The kinetic energy is well controlled even in the early stages of a simulation. |
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Keywords: | Ergodicity Hypoellipticity Temperature control Molecular dynamics Nosé-Hoover thermostat |
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