SAMBA: Systolic Accelerator for Molecular Biological Applications
SAMBA is a full custom systolic array dedicated to the comparison of
biological sequences. This hardware accelerator implements a
parameterized version of the Smith and Waterman algorithm allowing the
computation of local or global alignments with or without gap
penalty. The speed-up provided by SAMBA over standard workstations
ranges from 50 to 500, depending on the application.
A prototype of 128 processors, designed in the API
team, is currently running at IRISA (http://www.irisa.fr/)
For improving SAMBA, we are interested in testing significant time
consumming sequence comparison applications.
Please contact Dominique Lavenier (lavenier at irisa.fr)
SAMBA Web page : http://www.irisa.fr/EXTERNE/projet/api/SAMBA/