Publication Type
Conference Paper
Book Title
Proceedings of the 2007 Reconfigurable Systems Summer Institute (on DVD)
Publication Date
Page Numbers
1 to 8
Volume
2007
Conference Name
Reconfigurable Systems Summer Institute (RSSI) 2007, National Center for Supercomputer Applications (NCSA)
Conference Location
Urbana, Illinois, United States of America
Conference Sponsor
National Center for Supercomputer Applications (NCSA), OpenFPGA and Manchester University (UK)
Conference Date
-
Abstract
FPGA hardware and tools (VHDL, Viva, MitrionC and CHiMPS) are described. FPGA performance is evaluated on two Cray XD1 systems (Virtex-II Pro 50 and Virtex-4 LX160) for human genome (DNA and protein) sequence comparisons for a computational biology code (FASTA). Scalable FPGA speedups of 50X (Virtex-II) and 100X (Virtex-4) over a 2.2 GHz Opteron were achieved. Coding and IO issues faced for human genome data are described.