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CBESW 20081023

:: DESCRIPTION

CBESWdemonstrates how the PlayStation® 3, powered by the Cell Broadband Engine, can be used as a computational platform to accelerate the Smith-Waterman algorithm. It also demonstrates that the PlayStation® 3 console can be used as an efficient low cost computational platform for high performance sequence alignment applications.For large datasets, our implementation on the PlayStation® 3 provides a significant improvement in running time compared to other implementations such as SSEARCH, Striped Smith-Waterman and CUDA. CBESW achieves a peak performance of up to 3.646 GCUPS. This performance is about 30x faster than the straightforward C-implementation in SSEARCH. It is also 1.64x faster than the highly optimized striped SW implementation on an Intel processor and 3x times faster than a CUDA implementation on an Nvidia GeForce 8800GTX.

::DEVELOPER

Parallel and Distributed Architectures

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • PlayStation® 3
  • Yellow Dog Linux
  • Cell SDK 2.0

:: DOWNLOAD

 CBESW

:: MORE INFORMATION

Citation

Adrianto Wirawan, Chee Keong Kwoh, Tri Hieu Nim, Bertil Schmidt:
CBESW: Sequence Alignment on the Playstation 3“.
BMC Bioinformatics, 2008, 9:377

 

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