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» Reconfigurable Molecular Dynamics Simulator
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TC
2008
13 years 6 months ago
An Efficient and Deadlock-Free Network Reconfiguration Protocol
Component failures and planned component replacements cause changes in the topology and routing paths supplied by the interconnection network of a parallel processor system over ti...
Olav Lysne, José Miguel Montañana, J...
WOB
2004
120views Bioinformatics» more  WOB 2004»
13 years 7 months ago
Reconfigurable Systems for Sequence Alignment and for General Dynamic Programming
ABSTRACT. Reconfigurable systolic arrays can be adapted to efficiently resolve a wide spectrum of computational problems; parallelism is naturally explored in systolic arrays and r...
Ricardo P. Jacobi, Mauricio Ayala-Rincón, L...
BICOB
2009
Springer
14 years 18 days ago
Towards Large-Scale Molecular Dynamics Simulations on Graphics Processors
Atomistic molecular dynamics (MD) simulations are a vital tool in chemical research, as they are able to provide a view of chemical systems and processes that is not obtainable thr...
Joseph E. Davis, Adnan Ozsoy, Sandeep Patel, Miche...
HIPC
2007
Springer
14 years 5 days ago
Molecular Dynamics Simulations on Commodity GPUs with CUDA
Molecular dynamics simulations are a common and often repeated task in molecular biology. The need for speeding up this treatment comes from the requirement for large system simula...
Weiguo Liu, Bertil Schmidt, Gerrit Voss, Wolfgang ...
JCC
2010
113views more  JCC 2010»
13 years 4 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...