Using metadynamics to explore complex free-energy landscapes
Metadynamics is an atomistic simulation technique that allows, within the same framework,
acceleration of rare events and estimation of the free energy of complex molecular systems …
acceleration of rare events and estimation of the free energy of complex molecular systems …
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 …
Data-driven collective variables for enhanced sampling
Designing an appropriate set of collective variables is crucial to the success of several
enhanced sampling methods. Here we focus on how to obtain such variables from …
enhanced sampling methods. Here we focus on how to obtain such variables from …
The exploration of chemical reaction networks
JP Unsleber, M Reiher - Annual review of physical chemistry, 2020 - annualreviews.org
Modern computational chemistry has reached a stage at which massive exploration into
chemical reaction space with unprecedented resolution with respect to the number of …
chemical reaction space with unprecedented resolution with respect to the number of …
Chemoton 2.0: autonomous exploration of chemical reaction networks
Fueled by advances in hardware and algorithm design, large-scale automated explorations
of chemical reaction space have become possible. Here, we present our approach to an …
of chemical reaction space have become possible. Here, we present our approach to an …
Deep learning collective variables from transition path ensemble
The study of the rare transitions that take place between long lived metastable states is a
major challenge in molecular dynamics simulations. Many of the methods suggested to …
major challenge in molecular dynamics simulations. Many of the methods suggested to …
Autonomous reaction network exploration in homogeneous and heterogeneous catalysis
Autonomous computations that rely on automated reaction network elucidation algorithms
may pave the way to make computational catalysis on a par with experimental research in …
may pave the way to make computational catalysis on a par with experimental research in …
A human-machine interface for automatic exploration of chemical reaction networks
Autonomous reaction network exploration algorithms offer a systematic approach to explore
mechanisms of complex chemical processes. However, the resulting reaction networks are …
mechanisms of complex chemical processes. However, the resulting reaction networks are …
From enhanced sampling to reaction profiles
E Trizio, M Parrinello - The Journal of Physical Chemistry Letters, 2021 - ACS Publications
The determination of efficient collective variables is crucial to the success of many enhanced
sampling methods. As inspired by previous discrimination approaches, we first collect a set …
sampling methods. As inspired by previous discrimination approaches, we first collect a set …
Discover, sample, and refine: Exploring chemistry with enhanced sampling techniques
Over the last few decades, enhanced sampling methods have been continuously improved.
Here, we exploit this progress and propose a modular workflow for blind reaction discovery …
Here, we exploit this progress and propose a modular workflow for blind reaction discovery …