RC Blast

From RCSWiki

RC-BLAST

Project led by Siddhartha Datta under the guidance of Dr. Ron Sass

What is BLAST?

BLAST is a tool universally used by biologists to identify similarities between unknown genome sequences and existing genomic databases.

What is RC-BLAST?

An open source description of the how to accelerate BLAST with an FPGA. The current implementation is done on a Xilinx Virtex 4 FPGA. The interface to the hard disk is done through PCI.

Current Implementation

PUBLISHED PAPERS

1. K. Muriki, K. D. Underwood, and R. Sass. "Rc-blast: Towards a portable, cost-effective open source hardware implementation." In IPDPS ’05: Proceedings of the 19th IEEE International Parallel and Distributed Processing Symposium (IPDPS’05) - Workshop 7, page 196.2, 2005.

2. Siddhartha Datta, Parag Beeraka, Ron Sass. "RC-BLASTn: Implementation and Evaluation of the BLASTn Scan Function" In FCCM '09.