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自适应偏差增强采样中的探索与收敛速度。

Exploration vs Convergence Speed in Adaptive-Bias Enhanced Sampling.

机构信息

Freie Universität Berlin, 14195 Berlin, Germany.

Italian Institute of Technology, 16163 Genova, Italy.

出版信息

J Chem Theory Comput. 2022 Jun 14;18(6):3988-3996. doi: 10.1021/acs.jctc.2c00152. Epub 2022 May 26.

Abstract

In adaptive-bias enhanced sampling methods, a bias potential is added to the system to drive transitions between metastable states. The bias potential is a function of a few collective variables and is gradually modified according to the underlying free energy surface. We show that when the collective variables are suboptimal, there is an exploration-convergence tradeoff, and one must choose between a quickly converging bias that will lead to fewer transitions or a slower to converge bias that can explore the phase space more efficiently but might require a much longer time to produce an accurate free energy estimate. The recently proposed on-the-fly probability enhanced sampling (OPES) method focuses on fast convergence, but there are cases where fast exploration is preferred instead. For this reason, we introduce a new variant of the OPES method that focuses on quickly escaping metastable states at the expense of convergence speed. We illustrate the benefits of this approach in prototypical systems and show that it outperforms the popular metadynamics method.

摘要

在自适应偏差增强采样方法中,向系统中添加偏差势以驱动亚稳态之间的转变。偏差势是少数几个集体变量的函数,并根据基础自由能表面逐渐修改。我们表明,当集体变量不是最优时,存在探索-收敛的权衡,必须在快速收敛的偏差和较慢收敛的偏差之间做出选择,前者可以导致更少的转变,但后者可以更有效地探索相空间,但可能需要更长的时间来产生准确的自由能估计。最近提出的实时概率增强采样 (OPES) 方法侧重于快速收敛,但在某些情况下,快速探索更为优选。出于这个原因,我们引入了一种新的 OPES 方法变体,它侧重于快速逃离亚稳态,而牺牲收敛速度。我们在原型系统中说明了这种方法的好处,并表明它优于流行的元动力学方法。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/07e5/9202311/3b6444fd60df/ct2c00152_0002.jpg

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