Department of Chemical and Biomolecular Engineering, University of Notre Dame, Notre Dame, Indiana 46556, USA.
J Chem Phys. 2018 Mar 14;148(10):104111. doi: 10.1063/1.5018708.
Existing adaptive bias techniques, which seek to estimate free energies and physical properties from molecular simulations, are limited by their reliance on fixed kernels or basis sets which hinder their ability to efficiently conform to varied free energy landscapes. Further, user-specified parameters are in general non-intuitive yet significantly affect the convergence rate and accuracy of the free energy estimate. Here we propose a novel method, wherein artificial neural networks (ANNs) are used to develop an adaptive biasing potential which learns free energy landscapes. We demonstrate that this method is capable of rapidly adapting to complex free energy landscapes and is not prone to boundary or oscillation problems. The method is made robust to hyperparameters and overfitting through Bayesian regularization which penalizes network weights and auto-regulates the number of effective parameters in the network. ANN sampling represents a promising innovative approach which can resolve complex free energy landscapes in less time than conventional approaches while requiring minimal user input.
现有的自适应偏差技术,旨在从分子模拟中估计自由能和物理性质,受到其对固定核或基组的依赖的限制,这阻碍了它们有效地适应变化的自由能景观的能力。此外,用户指定的参数通常是非直观的,但会显著影响自由能估计的收敛速度和准确性。在这里,我们提出了一种新的方法,其中使用人工神经网络 (ANN) 来开发自适应偏置势,该势可以学习自由能景观。我们证明了这种方法能够快速适应复杂的自由能景观,并且不容易出现边界或振荡问题。该方法通过贝叶斯正则化来提高对超参数和过拟合的稳健性,正则化会惩罚网络权重并自动调节网络中有效参数的数量。ANN 采样是一种很有前途的创新方法,可以比传统方法更快地解决复杂的自由能景观问题,同时只需要最少的用户输入。