FHAST specifications


Unique identifier OMICS_25042
Alternative name FPGA hardware accelerated sequence-matching tool
Software type Application/Script
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Computer skills Advanced
Stability Stable
Maintained Yes



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  • person_outline Stefano Lordi <>
  • person_outline Stefano Lonardi <>
  • person_outline Jason Villarreal <>
  • person_outline Walid Najjar <>

Publication for FPGA hardware accelerated sequence-matching tool

FHAST institution(s)
Assists in short-read mapping. FHAST is an FPGA-based customized multithreading solution. It implements an approximate string matching algorithm based on the FM-index data structure. This implementation was designed on the Convey HC-1 and later ported on the Convey HC-2ex. It is composed by multiple parallel engines to exploit the parallelism available to use on a field programmable gate arrays (FPGA).
FHAST funding source(s)
Supported by US National Science Foundation Awards 0905509, 0811416, by a Cisco Systems research grant, by NIH Award AI85077-01A1, US National Science Foundation Awards DBI-1062301, IIS1302134 and by an AFRL contract FA9453-09-C-0173.

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