Literature DB >> 29055305

Nudged elastic band calculations accelerated with Gaussian process regression.

Olli-Pekka Koistinen1, Freyja B Dagbjartsdóttir2, Vilhjálmur Ásgeirsson2, Aki Vehtari1, Hannes Jónsson2.   

Abstract

Minimum energy paths for transitions such as atomic and/or spin rearrangements in thermalized systems are the transition paths of largest statistical weight. Such paths are frequently calculated using the nudged elastic band method, where an initial path is iteratively shifted to the nearest minimum energy path. The computational effort can be large, especially when ab initio or electron density functional calculations are used to evaluate the energy and atomic forces. Here, we show how the number of such evaluations can be reduced by an order of magnitude using a Gaussian process regression approach where an approximate energy surface is generated and refined in each iteration. When the goal is to evaluate the transition rate within harmonic transition state theory, the evaluation of the Hessian matrix at the initial and final state minima can be carried out beforehand and used as input in the minimum energy path calculation, thereby improving stability and reducing the number of iterations needed for convergence. A Gaussian process model also provides an uncertainty estimate for the approximate energy surface, and this can be used to focus the calculations on the lesser-known part of the path, thereby reducing the number of needed energy and force evaluations to a half in the present calculations. The methodology is illustrated using the two-dimensional Müller-Brown potential surface and performance assessed on an established benchmark involving 13 rearrangement transitions of a heptamer island on a solid surface.

Year:  2017        PMID: 29055305     DOI: 10.1063/1.4986787

Source DB:  PubMed          Journal:  J Chem Phys        ISSN: 0021-9606            Impact factor:   3.488


  4 in total

1.  Gaussian Process Regression for Materials and Molecules.

Authors:  Volker L Deringer; Albert P Bartók; Noam Bernstein; David M Wilkins; Michele Ceriotti; Gábor Csányi
Journal:  Chem Rev       Date:  2021-08-16       Impact factor: 60.622

Review 2.  Dynamics of Heterogeneous Catalytic Processes at Operando Conditions.

Authors:  Xiangcheng Shi; Xiaoyun Lin; Ran Luo; Shican Wu; Lulu Li; Zhi-Jian Zhao; Jinlong Gong
Journal:  JACS Au       Date:  2021-11-04

3.  Low-cost prediction of molecular and transition state partition functions via machine learning.

Authors:  Evan Komp; Stéphanie Valleau
Journal:  Chem Sci       Date:  2022-06-14       Impact factor: 9.969

4.  Expanding the Material Search Space for Multivalent Cathodes.

Authors:  Ann Rutt; Jimmy-Xuan Shen; Matthew Horton; Jiyoon Kim; Jerry Lin; Kristin A Persson
Journal:  ACS Appl Mater Interfaces       Date:  2022-09-22       Impact factor: 10.383

  4 in total

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