Literature DB >> 14515374

Adaptive integration of molecular dynamics.

Illia Horenko1, Martin Weiser.   

Abstract

This article presents a particle method framework for simulating molecular dynamics. For time integration, the implicit trapezoidal rule is employed, where an explicit predictor enables large time steps. Error estimators for both the temporal and spatial discretization are advocated, and facilitate a fully adaptive propagation. The framework is developed and exemplified in the context of the classical Liouville equation, where Gaussian phase-space packets are used as particles. Simplified variants are discussed briefly. The concept is illustrated by numerical examples for one-dimensional dynamics in double well potential. Copyright 2003 Wiley Periodicals, Inc. J Comput Chem 24: 1921-1929, 2003

Year:  2003        PMID: 14515374     DOI: 10.1002/jcc.10335

Source DB:  PubMed          Journal:  J Comput Chem        ISSN: 0192-8651            Impact factor:   3.376


  1 in total

1.  Model selection in systems biology depends on experimental design.

Authors:  Daniel Silk; Paul D W Kirk; Chris P Barnes; Tina Toni; Michael P H Stumpf
Journal:  PLoS Comput Biol       Date:  2014-06-12       Impact factor: 4.475

  1 in total

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