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ICA3PP
2005
Springer
13 years 11 months ago
GridMD: Program Architecture for Distributed Molecular Simulation
In the present work we describe architectural concepts of the distributed molecular simulation package GridMD. The main purpose of this work is to underline the construction patter...
Ilya Valuev
CPHYSICS
2008
106views more  CPHYSICS 2008»
13 years 5 months ago
A space-time-ensemble parallel nudged elastic band algorithm for molecular kinetics simulation
A scalable parallel algorithm has been designed to study long-time dynamics of many-atom systems based on the nudged elastic band method, which performs mutually constrained molec...
Aiichiro Nakano
CEC
2008
IEEE
13 years 12 months ago
Dynamic adaptation and multiobjective concepts in a particle swarm optimizer for constrained optimization
— In this paper, we propose a novel approach to solve constrained optimization problems based on particle swarm optimization (PSO). First, an empirical comparison of the most pop...
Jorge Isacc Flores-Mendoza, Efrén Mezura-Mo...
ICDE
2010
IEEE
194views Database» more  ICDE 2010»
14 years 11 days ago
Visualizing cost-based XQuery optimization
Abstract— Developing a full-fledged cost-based XQuery optimizer is a fairly complex task. Nowadays, there is little knowledge concerning suitable cost formulae and optimization ...
Andreas M. Weiner, Theo Härder, Renato Olivei...
PPOPP
2006
ACM
13 years 11 months ago
Performance characterization of molecular dynamics techniques for biomolecular simulations
Large-scale simulations and computational modeling using molecular dynamics (MD) continues to make significant impacts in the field of biology. It is well known that simulations...
Sadaf R. Alam, Jeffrey S. Vetter, Pratul K. Agarwa...