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IPPS
2008
IEEE
14 years 2 months ago
Overcoming scaling challenges in biomolecular simulations across multiple platforms
NAMD† is a portable parallel application for biomolecular simulations. NAMD pioneered the use of hybrid spatial and force decomposition, a technique now used by most scalable pr...
Abhinav Bhatele, Sameer Kumar, Chao Mei, James C. ...
RTAS
2008
IEEE
14 years 2 months ago
Schedulability Analysis of MSC-based System Models
Message Sequence Charts (MSCs) are widely used for describing interaction scenarios between the components of a distributed system. Consequently, worst-case response time estimati...
Lei Ju, Abhik Roychoudhury, Samarjit Chakraborty
AICCSA
2007
IEEE
124views Hardware» more  AICCSA 2007»
14 years 2 months ago
The Maximum Common Subgraph Problem: Faster Solutions via Vertex Cover
In the maximum common subgraph (MCS) problem, we are given a pair of graphs and asked to find the largest induced subgraph common to them both. With its plethora of applications,...
Faisal N. Abu-Khzam, Nagiza F. Samatova, Mohamad A...
BIBE
2007
IEEE
128views Bioinformatics» more  BIBE 2007»
14 years 2 months ago
QOMA2: Optimizing the alignment of many sequences
Abstract—We consider the problem of aligning multiple protein sequences with the goal of maximizing the SP (Sum-of-Pairs) score, when the number of sequences is large. The QOMA (...
Xu Zhang, Tamer Kahveci
CODES
2007
IEEE
14 years 2 months ago
HW/SW co-design for Esterel processing
We present a co-synthesis approach that accelerates reactive software processing by moving the calculation of complex expressions into external combinational hardware. The startin...
Sascha Gädtke, Claus Traulsen, Reinhard von H...
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