Approximate String Matching with SIMD-Reference-Cited by-同舟云学术

Approximate String Matching with SIMD

Published:2021-02-23 Issue: Volume: Page:
ISSN:0010-4620
Container-title:The Computer Journal
language:en
Short-container-title:

Author:

Fiori Fernando J¹,Pakalén Waltteri²,Tarhio Jorma²

Affiliation:

1. Departamento de Ciencias de la Computación, Facultad de Ciencias Exactas, Ingeniería y Agrimensura, Universidad Nacional de Rosario, Pellegrini 250, S2000BTP Rosario, Argentina

2. Department of Computer Science, Aalto University, P.O.B. 15400, FI-00076 Aalto, Finland

Abstract

Abstract We consider the $k$ mismatches version of approximate string matching for a single pattern and multiple patterns. For these problems, we present new algorithms utilizing the single instruction multiple data (SIMD) instruction set extensions for patterns of up to 32 characters. We apply SIMD computation in three ways: in counting of mismatches, in comparison of substrings and in calculation of fingerprints. We show the competitiveness of the new algorithms by practical experiments.

Publisher

Oxford University Press (OUP)

Subject

General Computer Science

Link

http://academic.oup.com/comjnl/advance-article-pdf/doi/10.1093/comjnl/bxaa193/36601038/bxaa193.pdf

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