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Simulating the long-timescale dynamics of biomolecules is a central challenge in computational science. While enhanced sampling methods can accelerate these simulations, they rely on pre-defined collective variables that are often difficult…

生物大分子 · 定量生物学 2025-12-01 Aditya Sengar , Jiying Zhang , Pierre Vandergheynst , Patrick Barth

The totally asymmetric simple exclusion process (TASEP) is a paradigmatic lattice model for one-dimensional particle transport subject to excluded-volume interactions. Solving the inhomogeneous TASEP in which particles' hopping rates vary…

统计力学 · 物理学 2023-10-31 Luca Ciandrini , Richmond L. Crisostomo , Juraj Szavits-Nossan

Classical $(1+1)D$ cellular automata, as for instance Domany-Kinzel cellular automata, are paradigmatic systems for the study of non-equilibrium phenomena. Such systems evolve in discrete time-steps, and are thus free of time-discretisation…

量子物理 · 物理学 2021-04-14 Edward Gillman , Federico Carollo , Igor Lesanovsky

We study confined solutions of certain evolutionary partial differential equations (pde) in 1+1 space-time. The pde we study are Lie-Poisson Hamiltonian systems for quadratic Hamiltonians defined on the dual of the Lie algebra of vector…

solv-int · 物理学 2007-05-23 O. B. Fringer , D. D. Holm

Cosmic-ray acceleration processes in astrophysical plasmas are often investigated with fully-kinetic or hybrid kinetic numerical simulations, which enable us to describe a detailed microphysics of particle energization mechanisms. Tracing…

高能天体物理现象 · 物理学 2025-02-12 Gabriel Torralba Paz , Artem Bohdan , Jacek Niemiec

We introduce a new approach for the robust control of quantum dynamics of strongly interacting many-body systems. Our approach involves the design of periodic global control pulse sequences to engineer desired target Hamiltonians that are…

The Poisson-Fermi model is an extension of the classical Poisson-Boltzmann model to include the steric and correlation effects of ions and water treated as nonuniform spheres in aqueous solutions. Poisson-Boltzmann electrostatic…

计算物理 · 物理学 2018-07-04 Jen-Hao Chen , Ren-Chuen Chen , Jinn-Liang Liu

Molecular dynamics (MD) simulation is essential for various scientific domains but computationally expensive. Learning-based force fields have made significant progress in accelerating ab-initio MD simulation but are not fast enough for…

机器学习 · 计算机科学 2023-08-29 Xiang Fu , Tian Xie , Nathan J. Rebello , Bradley D. Olsen , Tommi Jaakkola

We present a quantum algorithm based on repeated measurement to solve initial-value problems for nonlinear ordinary differential equations (ODEs), which may be generated from partial differential equations in plasma physics. We map a…

量子物理 · 物理学 2025-04-30 Joseph Andress , Alexander Engel , Yuan Shi , Scott Parker

A method for simulation of elastoplastic solids in multibody systems with nonsmooth and multidomain dynamics is developed. The solid is discretised into pseudo-particles using the meshfree moving least squares method. The particles carry…

软凝聚态物质 · 物理学 2016-11-14 John Nordberg , Martin Servin

Discrete particle simulations have become the standard in science and industrial applications exploring the properties of particulate systems. Most of such simulations rely on the concept of interacting spherical particles to describe the…

Hamiltonian particle-based simulations of plasma dynamics are inherently computationally intensive, primarily due to the large number of particles required to obtain accurate solutions. This challenge becomes even more acute in many-query…

Nonlinearities and instabilities in mechanical structures have shown great promise for embedding advanced functionalities. However, simulating structures subject to nonlinearities can be challenging due to the complexity of their behavior,…

软凝聚态物质 · 物理学 2025-10-23 Paul Ducarme , Bart Weber , Martin van Hecke , Johannes T. B. Overvelde

Phase mixing is a fundamental kinetic process that governs dissipation and stability in collisionless plasmas, but its inherent filamentation in velocity space creates major challenges for both high-fidelity simulations and reduced-order…

等离子体物理 · 物理学 2025-09-23 Darian Figuera-Michal , Sungpil Yum , Jae-Min Kwon , Eisung Yoon

Quantifying simulation uncertainties is a critical component of rigorous predictive simulation. A key component of this is forward propagation of uncertainties in simulation input data to output quantities of interest. Typical approaches…

数学软件 · 计算机科学 2015-11-13 E. Phipps , M. D'Elia , H. C. Edwards , M. Hoemmen , J. Hu , S. Rajamanickam

Particle acceleration in collisionless plasma systems is a central question in astroplasma and astroparticle physics. The structure of the acceleration regions, electron-ion energy equilibration, preacceleration of particles at shocks to…

高能天体物理现象 · 物理学 2020-02-19 Martin Pohl , Masahiro Hoshino , Jacek Niemiec

A complex (dusty) plasma system is well known as a paradigmatic model for studying the kinetics of solid-liquid phase transitions in inactive condensed matter. At the same time, under certain conditions a complex plasma system can also…

We present initial results regarding the existence, stability and interaction of linear and nonlinear vibrational modes in a system of two coupled, one dimensional lattices with unequal numbers of masses. The effects on these nonlinear…

生物物理 · 物理学 2007-05-23 Kyle Forinash

Discovering the underlying dynamics of complex systems from data is an important practical topic. Constrained optimization algorithms are widely utilized and lead to many successes. Yet, such purely data-driven methods may bring about…

动力系统 · 数学 2023-05-17 Nan Chen , Yinling Zhang

The goal of this presentation is to highlight various computational techniques used to study dynamics of quantum many-body systems. We examine the projection and variable phase methods being applied to multi-channel problems of scattering…

核理论 · 物理学 2014-12-22 Alexander Volya
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