High-throughput Pairwise Alignment with the Wavefront Algorithm using Processing-in-Memory

2022/04/05 by Safaa Diab, Diab, Safaa, Amir Nassereldine +9 · 1 citation
Computer Science · #Advanced Image and Video Retrieval Techniques #Blind Source Separation Techniques #Distributed #FOS: Computer and information sciences #Hardware Architecture (cs.AR) #Neural Networks and Reservoir Computing #Parallel #and Cluster Computing (cs.DC)

paper · pdf · doi:10.48550/arxiv.2204.02085

openalex publication_date 2022/04/05 · openalex created_date 2025/10/10 · openalex updated_date 2026/07/28

Abstract

We show that the wavefront algorithm can achieve higher pairwise read alignment throughput on a UPMEM PIM system than on a server-grade multi-threaded CPU system.

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