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Semiflexible polymers in concentrated lyotropic solution are studied within a bead-spring model by molecular dynamics simulations, focusing on the emergence of a smectic A phase and its properties. We systematically vary the density of the…

Soft Condensed Matter · Physics 2019-01-28 Andrey Milchev , Arash Nikoubashman , Kurt Binder

In order to find a measure of the dynamical features of phase separation kinetics during spinodal decomposition of a liquid binary mixture (like water and cyclohexane , water and 2,6 lutidiene or methanol and cyclohexane), we study both the…

Soft Condensed Matter · Physics 2016-04-21 Milan K. Hazra , Sarmistha Sarkar , Biman Bagchi

We report on a large scale computer simulation study of crystal nucleation in hard spheres. Through a combined analysis of real and reciprocal space data, a picture of a two-step crystallization process is supported: First dense, amorphous…

Soft Condensed Matter · Physics 2015-05-18 T. Schilling , H. J. Schope , M. Oettel , G. Opletal , I. Snook

We discuss an implementation of molecular dynamics (MD) simulations on a graphic processing unit (GPU) in the NVIDIA CUDA language. We tested our code on a modern GPU, the NVIDIA GeForce 8800 GTX. Results for two MD algorithms suitable for…

Other Condensed Matter · Physics 2008-09-10 J. A. van Meel , A. Arnold , D. Frenkel , S. F. Portegies Zwart , R. G. Belleman

The never-ending computational demand from simulations of turbulence makes computational fluid dynamics (CFD) a prime application use case for current and future exascale systems. High-order finite element methods, such as the spectral…

Distributed, Parallel, and Cluster Computing · Computer Science 2024-05-10 Martin Karp , Estela Suarez , Jan H. Meinke , Måns I. Andersson , Philipp Schlatter , Stefano Markidis , Niclas Jansson

We study the coalescence of nanoscale metal clusters in an inert-gas atmosphere using constant-energy molecular dynamics. The coalescence proceeds via atomic diffusion with the release of surface energy raising the temperature. If the…

Condensed Matter · Physics 2007-05-23 Shaun C. Hendy , Simon A. Brown , Michael Hyslop

Soft porous crystals present a challenge to molecular dynamics simulations with flexible size and shape of the simulation cell (i.e., in the NPT ensemble), since their framework responds very sensitively to small external stimuli. Hence,…

Numerical results on the translocation of long biopolymers through mid-sized and wide pores are presented. The simulations are based on a novel methodology which couples molecular motion to a mesoscopic fluid solvent. Thousands of events of…

Biological Physics · Physics 2015-05-13 Maria Fyta , Simone Melchionna , Massimo Bernaschi , Efthimios Kaxiras , Sauro Succi

Understanding and prediction of the chemical reactions are fundamental demanding in the study of many complex chemical systems. Reactive molecular dynamics (MD) simulation has been widely used for this purpose as it can offer atomic details…

Chemical Physics · Physics 2020-11-12 Jinzhe Zeng , Liqun Cao , Mingyuan Xu , Tong Zhu , John ZH Zhang

Two-step crystallization via a metastable intermediate phase is often regarded as a non-classical process that lies beyond the framework of classical nucleation theory (CNT). In this work, we investigate two-step crystallization in…

Soft Condensed Matter · Physics 2025-04-10 Willem Gispen , Peter G. Bolhuis , Marjolein Dijkstra

Despite its fundamental and technological importance, a microscopic understanding of the crystallization process is still elusive. By computer simulations of the hard-sphere model we reveal the mechanism by which thermal fluctuations drive…

Soft Condensed Matter · Physics 2012-06-29 John Russo , Hajime Tanaka

The fluid and solid equations of state for hard parallel squares and cubes are reinvestigated here over a wide range of densities. We use a novel single-speed version of molecular dynamics. Our results are compared with those from earlier…

Statistical Mechanics · Physics 2015-05-13 Wm G Hoover , Carol G Hoover , Marcus N. Bannerman

The ubiquitous phenomena of crystallization and melting occur in various geophysical contexts across many spatial and temporal scales. In particular, they take place in the iron core of terrestrial planets and moons, profoundly influencing…

Earth and Planetary Astrophysics · Physics 2025-05-16 Ludovic Huguet , Quentin Kriaa , Thierry Alboussière , Michael Le Bars

Aggregation and settling are crucial phenomena that involve particulate systems. For particle sizes of millimetre and above, there are reasonable accurate predicting tools. However for smaller particle sizes, there appears to be a void in…

Fluid Dynamics · Physics 2016-01-15 D D Liyanage , Rajika J K A Thamali , A A K Kumbalatara , J A Weliwita , S Witharana

We consider dense rapid shear flow of inelastically colliding hard disks. Navier-Stokes granular hydrodynamics is applied accounting for the recent finding \cite{Luding,Khain} that shear viscosity diverges at a lower density than the rest…

Soft Condensed Matter · Physics 2009-11-13 Evgeniy Khain

A new approach that is a combination of classical thermodynamics and macroscopic kinetics is offered for studying the nucleation kinetics in condensed binary solutions. The theory covers the separation of liquid and solid solutions…

Chemical Physics · Physics 2018-11-14 Nikolay V. Alekseechkin

The statistical mechanics of phase transitions in dense systems of polydisperse particles presents distinctive challenges to computer simulation and analytical theory alike. The core difficulty, namely dealing correctly with particle size…

Soft Condensed Matter · Physics 2013-09-03 Nigel B. Wilding , Peter Sollich

We present an extensive but concise review of our present understanding, largely based on theory and simulation work from our group, on the equilibrium behavior of solid surfaces and nanosystems close to the bulk melting point. In the first…

Materials Science · Physics 2007-05-23 U. Tartaglino , T. Zykova-Timan , F. Ercolessi , E. Tosatti

We present molecular dynamics simulations of solid NaNO$_2$ using pair potentials with the rigid-ion model. The crystal potential surface is calculated by using an \emph{a priori} method which integrates the \emph{ab initio} calculations…

Materials Science · Physics 2009-11-10 Wei-Guo Yin , C. -G. Duan , W. N. Mei , J. Liu , R. W. Smith , J. R. Hardy

We present a novel method for the accurate numerical determination of the phase behavior of fluid mixtures having large particle size asymmetries. By incorporating the recently developed geometric cluster algorithm within a restricted Gibbs…

Soft Condensed Matter · Physics 2007-05-23 Jiwen Liu , Nigel B. Wilding , Erik Luijten