We present our work on hardware accelerated genomics pipelines, using either FPGAs or
GPUs to accelerate execution of BWA-MEM, a widely-used algorithm for genomic short read …

Motivation High throughput DNA sequencing (HTS) technologies generate an excessive
number of small DNA segments-called short reads-that cause significant computational …

With the end of CPU core scaling due to dark silicon limitations, customized accelerators on
FPGAs have gained increased attention in modern datacenters due to their lower power …

FPGA-enabled datacenters have shown great potential for providing performance and
energy efficiency improvement. In this paper we aim to answer one key question: how can …

The advance of next-generation sequencing technology has dramatically reduced the cost
of genome sequencing. However, processing and analyzing huge amounts of data collected …

Since its establishment in 2009, the Center for Domain-Specific Computing (CDSC) has
focused on customizable computing. We believe that future computing systems will be …

Motivation The increasing amount of next-generation sequencing data poses a fundamental
challenge on large scale genomic analytics. Existing tools use different distributed …

Variant calling is a fundamental task that involves identifying variants in an individual's
genome compared to the reference genome. Knowing these variants is critical for assessing …

Human genome sequences are very large in size and require significant compute and
storage resources for processing and analysis. Variant calling is a key task performed on an …

A whole genome sequence of a human can consume gigabytes of storage space. Analyzing
a large number of such sequences is a compute and memory intensive process. In this …