Combining stochastic resetting with Metadynamics to speed-up molecular dynamics simulations

Ofir Blumer, Shlomi Reuveni, Barak Hirshberg*

*Corresponding author for this work

Research output: Contribution to journalArticlepeer-review

23 Scopus citations

Abstract

Metadynamics is a powerful method to accelerate molecular dynamics simulations, but its efficiency critically depends on the identification of collective variables that capture the slow modes of the process. Unfortunately, collective variables are usually not known a priori and finding them can be very challenging. We recently presented a collective variables-free approach to enhanced sampling using stochastic resetting. Here, we combine the two methods, showing that it can lead to greater acceleration than either of them separately. We also demonstrate that resetting Metadynamics simulations performed with suboptimal collective variables can lead to speedups comparable with those obtained with optimal collective variables. Therefore, applying stochastic resetting can be an alternative to the challenging task of improving suboptimal collective variables, at almost no additional computational cost. Finally, we propose a method to extract unbiased mean first-passage times from Metadynamics simulations with resetting, resulting in an improved tradeoff between speedup and accuracy. This work enables combining stochastic resetting with other enhanced sampling methods to accelerate a broad range of molecular simulations.

Original languageEnglish
Article number240
JournalNature Communications
Volume15
Issue number1
DOIs
StatePublished - Dec 2024

Funding

FundersFunder number
IAEC-UPBC415-2023
Horizon 2020 Framework Programme947731
European Commission
Israel Science Foundation394/19, 1037/22, 1312/22
PAZY Foundation

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