Neural network based path collective variables for enhanced sampling of phase transformations
arXiv:1905.01536 · doi:10.1103/PhysRevLett.123.245701
Abstract
We propose a rigorous construction of a 1D path collective variable to sample structural phase transformations in condensed matter. The path collective variable is defined in a space spanned by global collective variables that serve as classifiers derived from local structural units. A reliable identification of local structural environments is achieved by employing a neural network based classification. The 1D path collective variable is subsequently used together with enhanced sampling techniques to explore the complex migration of a phase boundary during a solid-solid phase transformation in molybdenum.
References in corpus (7)
- Escaping free-energy minima
- Well-Tempered Metadynamics: A Smoothly Converging and Tunable Free-Energy Method
- Spin transfer torque devices utilizing the giant spin Hall effect of tungsten
- Accurate determination of crystal structures based on averaged local bond order parameters
- iMapD: intrinsic Map Dynamics exploration for uncharted effective free energy landscapes
- Exploring High Dimensional Free Energy Landscapes: Temperature Accelerated Sliced Sampling
- Unfolding Hidden Barriers by Active Enhanced Sampling
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