GPU-Boosted Dynamic Time Warping for Nanopore Read Alignment

EasyChair Preprint 10913

Abstract

Nanopore sequencing has revolutionized genomics by offering real-time long-read capabilities. However, the computational demands of accurately aligning the raw electrical signals, often referred to as "squiggles," to reference genomes present a significant challenge. In this article, we explore the utilization of Graphics Processing Units (GPUs) to accelerate the Dynamic Time Warping (DTW) algorithm for nanopore read alignment. By harnessing the parallel processing power of GPUs, researchers can significantly boost the speed and efficiency of alignment while maintaining high accuracy.

Keyphrases: CPU, GUP, Nanopor

@booklet{EasyChair:10913,
  author    = {Muskan Khan and Fatima Tahir},
  title     = {GPU-Boosted Dynamic Time Warping for Nanopore Read Alignment},
  howpublished = {EasyChair Preprint 10913},
  year      = {EasyChair, 2023}}