Abstract
A field-programmable gate array implementation of a molecular dynamics simulation method reduces the microprocessor time-to-solution by a factor of three while using only high-level languages. The application speedup on FPGA devices increases with the problem size. The authors use a performance model to analyze the potential of simulating large-scale biological systems faster than many cluster-based supercomputing platforms.
Original language | English |
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Pages | 66-73 |
Number of pages | 8 |
Volume | 40 |
No | 3 |
Specialist publication | Computer |
DOIs | |
State | Published - Mar 2007 |
Funding
Oak Ridge National Laboratory’s Laboratory-Directed Research and Development Program, which UT-Battelle manages for the US Department of Energy under contract no. DE-AC05-00OR22725, sponsored this research.
Keywords
- Biomolecular simulations
- FPGAs
- Reconfigurable computing