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IPPS
2010
IEEE
13 years 2 months ago
Executing task graphs using work-stealing
Abstract--NABBIT is a work-stealing library for execution of task graphs with arbitrary dependencies which is implemented as a library for the multithreaded programming language Ci...
Kunal Agrawal, Charles E. Leiserson, Jim Sukha
ESOP
2009
Springer
13 years 11 months ago
A Basis for Verifying Multi-threaded Programs
Abstract. Advanced multi-threaded programs apply concurrency concepts in sophisticated ways. For instance, they use fine-grained locking to increase parallelism and change locking...
K. Rustan M. Leino, Peter Müller
IPPS
2009
IEEE
13 years 11 months ago
Dynamic parallelization for RNA structure comparison
In this paper we describe the parallelization of a dynamic programming algorithm used to find common RNA secondary structures including pseudoknots and similar structures. The se...
Eric Snow, Eric Aubanel, Patricia Evans
IPPS
2003
IEEE
13 years 10 months ago
Performing DNA Comparison on a Bio-Inspired Tissue of FPGAs
String comparison is a critical issue in many application domains, including speech recognition, contents search, and bioinformatics. The similarity between two strings of lengths...
Matteo Canella, Filippo Miglioli, Alessandro Bogli...
BCB
2010
156views Bioinformatics» more  BCB 2010»
12 years 11 months ago
Accelerating HMMER on GPUs by implementing hybrid data and task parallelism
Many biologically motivated problems are expressed as dynamic programming recurrences and are difficult to parallelize due to the intrinsic data dependencies in their algorithms. ...
Narayan Ganesan, Roger D. Chamberlain, Jeremy Buhl...