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We report a development of a new fast surface-based method for numerical calculations of solvation energy of biomolecules with a large number of charged groups. The procedure scales linearly with the system size both in time and memory…

Quantitative Methods · Quantitative Biology 2011-07-25 P. O. Fedichev , E. G. Getmantsev , L. I. Men'shikov

This work explores the capability of simulating complex fluid flows by directly solving the Boltzmann equation. Due to the high-dimensionality of the governing equation, the substantial computational cost of solving the Boltzmann equation…

Fluid Dynamics · Physics 2023-12-05 Tarik Dzanic , Luigi Martinelli

The following paper presents two simulation strategies for compressible two-phase or multicomponent flows. One is a full non-equilibrium model in which the pressure and velocity are driven towards the equilibrium at interfaces by numerical…

Computational Physics · Physics 2021-08-13 Rémi Abgrall , Paola Bacigaluppi , Barbara Re

We propose a simple algebraic method for constructing exact solutions of equations of two-dimensional hydrodynamics of an incompressible fluid. The problem reduces to consecutively solving three linear partial differential equations for a…

Exactly Solvable and Integrable Systems · Physics 2015-06-03 A. V. Yurov , A. A. Yurova

Pair potentials that are bounded at the origin provide an accurate description of the effective interaction for many systems of dissolved soft macromolecules (e.g., flexible dendrimers). Using numerical free-energy calculations, we…

Soft Condensed Matter · Physics 2014-10-29 C. Speranza , S. Prestipino , G. Malescio , P. V. Giaquinta

It has been known for a long time that many simple liquids have surprisingly similar structure as quantified, e.g., by the radial distribution function. A much more recent realization is that the dynamics are also very similar for a number…

Statistical Mechanics · Physics 2017-01-04 Andreas K. Bacher , Thomas B. Schrøder , Jeppe C. Dyre

Relevant and fundamental concepts of the statistical mechanical theory of classical liquids are ordinarily introduced in the context of the description of thermodynamic equilibrium states. This makes explicit reference to probability…

Statistical Mechanics · Physics 2024-01-30 O. Joaquín-Jaime , R. Peredo-Ortiz , M. Medina-Noyola , L. F. Elizondo-Aguilera

Direct numerical simulation of liquid-gas-solid flows is uncommon due to the considerable computational cost. As the grid spacing is determined by the smallest involved length scale, large grid sizes become necessary -- in particular if the…

Computational Physics · Physics 2018-02-14 Simon Bogner , Jens Harting , Ulrich Rüde

We present a physical formulation, and a numerical algorithm, based on a class of general order parameters for simulating the motion of a mixture of $N$ ($N\geqslant 2$) immiscible incompressible fluids with given densities, dynamic…

Fluid Dynamics · Physics 2014-12-17 Suchuan Dong

We discuss several approaches to generalized solutions of problems describing the motion of inviscid fluids. We propose a new concept of dissipative solution to the compressible Euler system based on a careful analysis of possible…

Analysis of PDEs · Mathematics 2019-07-04 Dominic Breit , Eduard Feireisl , Martina Hofmanova

An equilibrium theory of classical fluids based on the space distribution among the particles is derived in the framework of the energy minimization method. This study is motivated by current difficulties of evaluation of optical properties…

Statistical Mechanics · Physics 2009-11-10 R. D. Rohrmann

A general lattice Boltzmann method for simulation of fluids with tailored transport coefficients is presented. It is based on the recently introduced quasi-equilibrium kinetic models, and a general lattice Boltzmann implementation is…

Statistical Mechanics · Physics 2007-05-23 S. Ansumali , S. Arcidiacono , S. Chikatamarla , N. I. Prasianakis , A. N. Gorban , I. V. Karlin

The Hamiltonian dynamics of a compressible inviscid fluid is formulated as a gauge theory. The idea of gauge equivalence is exploited to unify the study of apparantly distinct physical problems and solutions of new models can be generated…

High Energy Physics - Theory · Physics 2007-05-23 Subir Ghosh

Hydroclimatic processes are characterized by heterogeneous spatiotemporal correlation structures and marginal distributions that can be continuous, mixed-type, discrete or even binary. Simulating exactly such processes can greatly improve…

Methodology · Statistics 2017-07-24 Simon Michael Papalexiou

The equation systems of generalized hydrodynamics, or generalized dynamics for simplicity, for soft-matter quasicrystals were established. Considering the fluidity of the matter with high order we introduced a new elementary…

Soft Condensed Matter · Physics 2019-10-17 Tian-You Fan

The paper is devoted to the development of a microscopic description of the critical behavior of a cell fluid model with allowance for the contributions from collective variables with nonzero values of the wave vector. The mathematical…

Statistical Mechanics · Physics 2020-07-01 I. V. Pylyuk , O. A. Dobush

Similarity reductions and new exact solutions are obtained for a nonlinear diffusion equation. These are obtained by using the classical symmetry group and reducing the partial differential equation to various ordinary differential…

Analysis of PDEs · Mathematics 2015-06-26 Maria Luz Gandarias , P. Venero , José Ramírez-Labrador

In this paper, we propose a class of efficient, accurate, and general methods for solving state-estimation problems with equality and inequality constraints. The methods are based on recent developments in variable splitting and partially…

Optimization and Control · Mathematics 2020-12-02 Rui Gao , Filip Tronarp , Simo Särkkä

The diffuse medium in and around galaxies can exist in a multi-phase state: small, cold gas clouds contributing significantly to the total mass embedded in pressure equilibrium with a hotter, more diffuse volume-filling component. Modeling…

Astrophysics of Galaxies · Physics 2022-12-28 Rainer Weinberger , Lars Hernquist

The analytic method for deriving the equation of state of a cell fluid model in the region above the critical temperature ($T \geqslant T_\text{c}$) is elaborated using the renormalization group transformation in the collective variables…

Statistical Mechanics · Physics 2018-12-21 M. P. Kozlovskii , I. V. Pylyuk , O. A. Dobush
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