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» Accelerating Molecular Dynamics Simulations with GPUs
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JCC
2010
113views more  JCC 2010»
13 years 3 months ago
MDLab: A molecular dynamics simulation prototyping environment
Molecular dynamics (MD) simulation involves solving Newton’s equations of motion for a system of atoms, by calculating forces and updating atomic positions and velocities over a...
Trevor M. Cickovski, Santanu Chatterjee, Jacob Wen...
JCC
2006
103views more  JCC 2006»
13 years 5 months ago
Flooding in GROMACS: Accelerated barrier crossings in molecular dynamics
: The major bottleneck of today's atomistic molecular dynamics (MD) simulations is that because of the enormous computational effort involved, only processes at nanoseconds to...
Oliver F. Lange, Lars V. Schäfer, Helmut Grub...
ICPP
2009
IEEE
14 years 4 days ago
Accelerating Lattice Boltzmann Fluid Flow Simulations Using Graphics Processors
—Lattice Boltzmann Methods (LBM) are used for the computational simulation of Newtonian fluid dynamics. LBM-based simulations are readily parallelizable; they have been implemen...
Peter Bailey, Joe Myre, Stuart D. C. Walsh, David ...
FCCM
2006
IEEE
201views VLSI» more  FCCM 2006»
13 years 9 months ago
Hardware/Software Approach to Molecular Dynamics on Reconfigurable Computers
With advances in reconfigurable hardware, especially field-programmable gate arrays (FPGAs), it has become possible to use reconfigurable hardware to accelerate complex applicatio...
Ronald Scrofano, Maya Gokhale, Frans Trouw, Viktor...
FPL
2007
Springer
150views Hardware» more  FPL 2007»
13 years 9 months ago
Discrete Event Simulation of Molecular Dynamics with Configurable Logic
: Molecular dynamics simulation based on discrete event simulation (DMD) is emerging as an alternative to time-step driven molecular dynamics (MD). DMD uses simplified discretized ...
Josh Model, Martin C. Herbordt