title: Free energy calculations: an efficient adaptive biasing potential method.
abstract: We develop an efficient sampling and free energy calculation technique within the adaptive biasing potential (ABP) framework. By mollifying the density of states we obtain an approximate free energy and an adaptive bias potential that is computed directly from the population along the coordinates of the free energy. Because of the mollifier, the bias potential is "nonlocal", and its gradient admits a simple analytic expression. A single observation of the reaction coordinate can thus be used to update the approximate free energy at every point within a neighborhood of the observation. This greatly reduces the equilibration time of the adaptive bias potential. This approximation introduces two parameters: strength of mollification and the zero of energy of the bias potential. While we observe that the approximate free energy is a very good estimate of the actual free energy for a large range of mollification strength, we demonstrate that the errors associated with the mollification may be removed via deconvolution. The zero of energy of the bias potential, which is easy to choose, influences the speed of convergence but not the limiting accuracy. This method is simple to apply to free energy or mean force computation in multiple dimensions and does not involve second derivatives of the reaction coordinates, matrix manipulations nor on-the-fly adaptation of parameters. For the alanine dipeptide test case, the new method is found to gain as much as a factor of 10 in efficiency as compared to two basic implementations of the adaptive biasing force methods, and it is shown to be as efficient as well-tempered metadynamics with the postprocess deconvolution giving a clear advantage to the mollified density of states method.
authors.affiliation: Université Paris Est, CERMICS, Project MICMAC Ecole des Ponts ParisTech-INRIA, 6 & 8 Avenue Blaise Pascal, 77455 Marne-la-Vallée Cedex 2, France. adynata@gmail.com
authors.forename: Bradley M
authors.initials: BM
authors.lastname: Dickson
authors.forename: Frédéric
authors.initials: F
authors.lastname: Legoll
authors.forename: Tony
authors.initials: T
authors.lastname: Lelièvre
authors.forename: Gabriel
authors.initials: G
authors.lastname: Stoltz
authors.forename: Paul
authors.initials: P
authors.lastname: Fleurat-Lessard