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AN AUTOMATIC ADAPTIVE IMPORTANCE SAMPLING ALGORITHM FOR MOLECULAR DYNAMICS IN REACTION COORDINATES

delete2018-01-01
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J
Jannes Quer *
L
Luca Donati
B
Bettina G. Keller
M
Marcus Weber
DOI:10.1137/17M1124772delete
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摘要

摘要

En 中文
In this article, we propose an adaptive importance sampling scheme for dynamical quantities of complex systems, which are metastable. The main idea of this article is to combine metadynamics, an algorithm from molecular dynamics simulation, with Girsanov's theorem, a result from stochastic analysis. With an assimilated version of the metadynamics algorithm we build a bias to reduce the metastability in the dynamical system. To correct the sampling of the modified system we apply a reweighting strategy based on Girsanov's theorem. The proposed algorithm has two advantages compared to a standard estimator of dynamic quantities: first, it is possible to produce estimators with a lower variance, and second, we speed up the generation of a typical sample.
Keyword:
adaptive importance sampling
molecular dynamics
metastability
variance reduction
nonequilibrium sampling
metadynamics
Girsanov
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期刊

SIAM Journal on Scientific Computing 封面图
SIAM Journal on Scientific Computing
IF:
2.6
论文数:
5.1K
被引数:
1.8W

机构

F
Free University of Berlin
学者数:
3.8W
论文数: 3.2W
被引数: 51
Zuse Institute Berlin 封面图
Zuse Institute Berlin
学者数:
426
论文数: 354
被引数: 367
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