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A family of fast sampling methods is introduced here for molecular simulations of systems having rugged free energy landscapes. The methods represent a generalization of a strategy consisting of adjusting a model for the free energy as a…

Computational Physics · Physics 2022-02-07 Pablo F. Zubieta Rico , Juan J. de Pablo

Crystallization processes at the mesoscopic scale, where faceted, dendritic growth, and multigrain formation can be observed, are of particular interest within materials science and metallurgy. These processes are highly nonlinear,…

Machine Learning · Computer Science 2024-05-28 Pol Timmer , Koen Minartz , Vlado Menkovski

Accurate performance estimation of future many-node machines is challenging because it requires detailed simulation models of both node and network. However, simulating the full system in detail is unfeasible in terms of compute and memory…

Performance · Computer Science 2024-01-19 Stijn Eyerman , Wim Heirman , Kristof Du Bois , Ibrahim Hur

The system-level dynamics of multivalent biomolecular interactions can be simulated using a rule-based kinetic Monte Carlo method in which a rejection sampling strategy is used to generate reaction events. This method becomes inefficient…

Quantitative Methods · Quantitative Biology 2010-03-04 Jin Yang , William S. Hlavacek

The modeling of solute chemistry at low-symmetry defects in materials is historically challenging, due to the computation cost required to evaluate thermodynamic properties from first principles. Here, we offer a hybrid multiscale approach…

Materials Science · Physics 2025-06-12 Nutth Tuchinda , Changle Li , Christopher A. Schuh

This paper proposes a new class of real-time optimization schemes to overcome system-model mismatch of uncertain processes. This work's novelty lies in integrating derivative-free optimization schemes and multi-fidelity Gaussian processes…

Machine Learning · Computer Science 2021-11-11 Panagiotis Petsagkourakis , Benoit Chachuat , Ehecatl Antonio del Rio-Chanona

In the practical application of restoring low-resolution gray-scale images, we generally need to run three separate processes of image colorization, super-resolution, and dows-sampling operation for the target device. However, this pipeline…

Computer Vision and Pattern Recognition · Computer Science 2022-01-13 Jiangning Zhang , Chao Xu , Jian Li , Yue Han , Yabiao Wang , Ying Tai , Yong Liu

Numerous molecular systems, including solutions, proteins, and composite materials, can be modeled using mixed-resolution representations, of which the quantum mechanics/molecular mechanics (QM/MM) approach has become the most widely used.…

Chemical Physics · Physics 2018-01-17 Anton V. Sinitskiy , Gregory A. Voth

Continually solving new, unsolved tasks is the key to learning diverse behaviors. Through reinforcement learning (RL), we have made massive strides towards solving tasks that have a single goal. However, in the multi-task domain, where an…

Machine Learning · Computer Science 2020-06-18 Yunzhi Zhang , Pieter Abbeel , Lerrel Pinto

A computer simulation has to be fast to be helpful, if it is employed to study the behavior of a multicomponent dynamic system. This paper discusses modeling concepts and algorithmic techniques useful for creating such fast simulations.…

Data Structures and Algorithms · Computer Science 2007-05-23 Boris D. Lubachevsky

The next generation of force fields for molecular dynamics will be developed using a wealth of data. Training systematically with experimental data remains a challenge, however, especially for machine learning potentials. Differentiable…

Biomolecules · Quantitative Biology 2025-04-16 Joe G Greener

Molecular Dynamics (MD) simulations are essential for accurately predicting the physical and chemical properties of large molecular systems across various pressure and temperature ensembles. However, the high computational costs associated…

Machine learning techniques are increasingly being applied in high-energy nuclear physics data analysis thanks to their outstanding performance. One key challenge in such applications is the construction of training samples that can…

Nuclear Experiment · Physics 2025-11-14 Yan Wang , Rangrong Ma , Kaifeng Shen , Zebo Tang , Wangmei Zha

We propose a hierarchy of multi-level kinetic Monte Carlo methods for sampling high-dimensional, stochastic lattice particle dynamics with complex interactions. The method is based on the efficient coupling of different spatial resolution…

Numerical Analysis · Mathematics 2012-08-06 Evangelia Kalligiannaki , Markos A. Katsoulakis , Petr Plechac

Molecular dynamics simulations are an important tool for describing the evolution of a chemical system with time. However, these simulations are inherently held back either by the prohibitive cost of accurate electronic structure theory…

Chemical Physics · Physics 2018-12-20 Michael Gastegger , Philipp Marquetand

Strong semantic representations improve the convergence and generation quality of diffusion and flow models. Existing approaches largely rely on external models, which require separate training, operate on misaligned objectives, and exhibit…

Computer Vision and Pattern Recognition · Computer Science 2026-03-09 Hila Chefer , Patrick Esser , Dominik Lorenz , Dustin Podell , Vikash Raja , Vinh Tong , Antonio Torralba , Robin Rombach

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 configuration space of complex systems in a given amount of simulation…

Statistical Mechanics · Physics 2022-12-19 Jérôme Hénin , Tony Lelièvre , Michael R. Shirts , Omar Valsson , Lucie Delemotte

Goal-conditioned reinforcement learning (GCRL) has a wide range of potential real-world applications, including manipulation and navigation problems in robotics. Especially in such robotics tasks, sample efficiency is of the utmost…

Machine Learning · Computer Science 2023-01-23 Bo Liu , Yihao Feng , Qiang Liu , Peter Stone

Self-Distillation is a special type of knowledge distillation where the student model has the same architecture as the teacher model. Despite using the same architecture and the same training data, self-distillation has been empirically…

Machine Learning · Computer Science 2024-07-08 Divyansh Pareek , Simon S. Du , Sewoong Oh

Heterogeneous multiscale methods (HMM) combine molecular accuracy of particle-based simulations with the computational efficiency of continuum descriptions to model flow in soft matter liquids. In these schemes, molecular simulations…