ASPICov: An automated pipeline for identification of SARS-Cov2 nucleotidic variants
Type | Article | ||||||||||||||||
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Date | 2022-01 | ||||||||||||||||
Language | English | ||||||||||||||||
Author(s) | Tilloy Valentin1, Cuzin Pierre2, Leroi Laura2, Guérin Emilie3, Durand Patrick2, Alain Sophie1 | ||||||||||||||||
Affiliation(s) | 1 : Centre National de Référence des Herpèsvirus, CHU Dupuytren, Limoges, France, UF9481 Bioinformatique, CHU Dupuytren, Limoges, France, UF8843 Génomique médicale, CHU Dupuytren, Limoges, France 2 : IFREMER-IRSI-Service de Bioinformatique, Centre Bretagne, Plouzane, France 3 : UF8843 Génomique médicale, CHU Dupuytren, Limoges, France |
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Source | Plos One (1932-6203) (Public Library of Science (PLoS)), 2022-01 , Vol. 17 , N. 1 , P. e0262953 (5p.) | ||||||||||||||||
DOI | 10.1371/journal.pone.0262953 | ||||||||||||||||
WOS© Times Cited | 6 | ||||||||||||||||
Abstract | ASPICov was developed to provide a rapid, reliable and complete analysis of NGS SARS-Cov2 samples to the biologist. This broad application tool allows to process samples from either capture or amplicon strategy and Illumina or Ion Torrent technology. To ensure FAIR data analysis, this Nextflow pipeline follows nf-core guidelines and use Singularity containers. Pipeline is implemented and available at https://gitlab.com/vtilloy/aspicov. |
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