Enhanced sampling methods for molecular dynamics simulations
Enhanced sampling algorithms have emerged as powerful methods to extend the utility of
molecular dynamics simulations and allow the sampling of larger portions of the …
molecular dynamics simulations and allow the sampling of larger portions of the …
Unsupervised learning methods for molecular simulation data
Unsupervised learning is becoming an essential tool to analyze the increasingly large
amounts of data produced by atomistic and molecular simulations, in material science, solid …
amounts of data produced by atomistic and molecular simulations, in material science, solid …
Machine-guided path sampling to discover mechanisms of molecular self-organization
Molecular self-organization driven by concerted many-body interactions produces the
ordered structures that define both inanimate and living matter. Here we present an …
ordered structures that define both inanimate and living matter. Here we present an …
Forces are not enough: Benchmark and critical evaluation for machine learning force fields with molecular simulations
Molecular dynamics (MD) simulation techniques are widely used for various natural science
applications. Increasingly, machine learning (ML) force field (FF) models begin to replace ab …
applications. Increasingly, machine learning (ML) force field (FF) models begin to replace ab …
Deep learning the slow modes for rare events sampling
The development of enhanced sampling methods has greatly extended the scope of
atomistic simulations, allowing long-time phenomena to be studied with accessible …
atomistic simulations, allowing long-time phenomena to be studied with accessible …
Enhanced sampling with machine learning
Molecular dynamics (MD) enables the study of physical systems with excellent
spatiotemporal resolution but suffers from severe timescale limitations. To address this …
spatiotemporal resolution but suffers from severe timescale limitations. To address this …
Artificial intelligence for science in quantum, atomistic, and continuum systems
Advances in artificial intelligence (AI) are fueling a new paradigm of discoveries in natural
sciences. Today, AI has started to advance natural sciences by improving, accelerating, and …
sciences. Today, AI has started to advance natural sciences by improving, accelerating, and …
Kinetics from metadynamics: Principles, applications, and outlook
Metadynamics is a popular enhanced sampling algorithm for computing the free energy
landscape of rare events by using molecular dynamics simulation. Ten years ago, Tiwary …
landscape of rare events by using molecular dynamics simulation. Ten years ago, Tiwary …
Hierarchical materials from high information content macromolecular building blocks: construction, dynamic interventions, and prediction
Hierarchical materials that exhibit order over multiple length scales are ubiquitous in nature.
Because hierarchy gives rise to unique properties and functions, many have sought …
Because hierarchy gives rise to unique properties and functions, many have sought …
A unified framework for machine learning collective variables for enhanced sampling simulations: mlcolvar
Identifying a reduced set of collective variables is critical for understanding atomistic
simulations and accelerating them through enhanced sampling techniques. Recently …
simulations and accelerating them through enhanced sampling techniques. Recently …