To evaluate electrostatics interactions, Molecular dynamics (MD) simulations rely on Particle Mesh Ewald (PME), an O(Nlog(N)) algorithm that uses Fast Fourier Transforms (FFTs) or, alternatively, on O(N) Fast Multipole Methods (FMM) approaches. However, the FFTs low scalability remains a strong bottleneck for large-scale PME simulations on supercomputers. On the opposite, - FFT-free - FMM techniques are able to deal efficiently with such systems but they fail to reach PME performances for small- to medium-size systems, limiting their real-life applicability. We propose ANKH, a strategy grounded on interpolated Ewald summations and designed to remain efficient/scalable for any size of systems. The method is generalized for distributed point ...
A significant and computationally most demanding part of molecular dynamics simulations is the calcu...
The Monte Carlo-Metropolis (MM) and Molecular Dynamics (MD) techniques are among the most popular ap...
Multipole-based algorithms allow for reduction in the effort required to solve the N - body problem ...
Methods for performing large-scale parallel Molecular Dynamics(MD) simulations are investigated. A ...
Ewald summation method, based on Non-Uniform FFTs (ENUF) to compute the electrostatic interactions a...
International audienceIn this article, we present a parallel implementation of point dipole-based po...
In this article, we present a parallel implementation of point dipole-based polarizable force fields...
An important and computationally demanding part of molecular dynamics simulations is the calculation...
Within molecular dynamics simulations of protein–solvent systems the exact evaluation of long-range ...
A molecular dynamics (MD) simulation program for biological macromolecules was implemented with a no...
Electrostatic interactions in molecular simulations are usually evaluated by employing the Ewald sum...
ABSTRACT: Within molecular dynamics simulations of protein]solvent systems the exact evaluation of l...
This thesis deals with fast and efficient methods for electrostatic calculations with application in...
Based on our critique of requirements for performing an efficient molecular dynamics simulation with...
93 p.Thesis (Ph.D.)--University of Illinois at Urbana-Champaign, 2005.Polarizable force fields are c...
A significant and computationally most demanding part of molecular dynamics simulations is the calcu...
The Monte Carlo-Metropolis (MM) and Molecular Dynamics (MD) techniques are among the most popular ap...
Multipole-based algorithms allow for reduction in the effort required to solve the N - body problem ...
Methods for performing large-scale parallel Molecular Dynamics(MD) simulations are investigated. A ...
Ewald summation method, based on Non-Uniform FFTs (ENUF) to compute the electrostatic interactions a...
International audienceIn this article, we present a parallel implementation of point dipole-based po...
In this article, we present a parallel implementation of point dipole-based polarizable force fields...
An important and computationally demanding part of molecular dynamics simulations is the calculation...
Within molecular dynamics simulations of protein–solvent systems the exact evaluation of long-range ...
A molecular dynamics (MD) simulation program for biological macromolecules was implemented with a no...
Electrostatic interactions in molecular simulations are usually evaluated by employing the Ewald sum...
ABSTRACT: Within molecular dynamics simulations of protein]solvent systems the exact evaluation of l...
This thesis deals with fast and efficient methods for electrostatic calculations with application in...
Based on our critique of requirements for performing an efficient molecular dynamics simulation with...
93 p.Thesis (Ph.D.)--University of Illinois at Urbana-Champaign, 2005.Polarizable force fields are c...
A significant and computationally most demanding part of molecular dynamics simulations is the calcu...
The Monte Carlo-Metropolis (MM) and Molecular Dynamics (MD) techniques are among the most popular ap...
Multipole-based algorithms allow for reduction in the effort required to solve the N - body problem ...