Algorithm-Hardware Co-Design for BQSR Acceleration in Genome Analysis ToolKit
Channel: UCLA VAST
Date: 2020-07-24

Presentation at FCCM 2020. Authors: Michael Lo, Zhenman Fang, Jie Wang, Peipei Zhou, Mau-Chung Frank Chang and Jason Cong. 

Genome sequencing is one of the key applications in healthcare and has a great potential to realize precision medicine and personalized healthcare. However, its computing process is very time consuming. Even pre-processing the raw sequence data of a whole genome for a single person to the analysis ready data can take several days on a single-core CPU. In this paper, we propose to accelerate the performance of the widely used Genome Analysis ToolKit (GATK) using FPGAs.