Ultra Efficient Acceleration for De Novo Genome Assembly via Near-Memory Computing

De novo assembly of genomes for which there is no reference, is essential for novel species discovery and metagenomics. In this work, we accelerate two key performance bottlenecks of DBG-based assembly, graph construction and graph traversal, with a near-data processing (NDP) architecture based on 3...

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Bibliographic Details

Published in:	2021 30th International Conference on Parallel Architectures and Compilation Techniques (PACT) pp. 199 - 212
Main Authors:	Zhou, Minxuan, Wu, Lingxi, Li, Muzhou, Moshiri, Niema, Skadron, Kevin, Rosing, Tajana
Format:	Conference Proceeding
Language:	English
Published:	IEEE 01.09.2021
Subjects:	Accelerator Design Bandwidth Bioinformatics Genomics Message passing Parallel processing Precision medicine Processing in memory Vaccines
Online Access:	Get full text
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