ASPICov: An automated pipeline for identification of SARS-Cov2 nucleotidic variants.

Tilloy, Valentin; Cuzin, Pierre; Leroi, Laura; Guérin, Emilie; Durand, Patrick; Alain, Sophie

Tilloy, Valentin; Cuzin, Pierre; Leroi, Laura; Guérin, Emilie; Durand, Patrick; Alain, Sophie.

Afiliação

Tilloy V; Centre National de Référence des Herpèsvirus, CHU Dupuytren, Limoges, France.
Cuzin P; UF9481 Bioinformatique, CHU Dupuytren, Limoges, France.
Leroi L; UF8843 Génomique médicale, CHU Dupuytren, Limoges, France.
Guérin E; IFREMER-IRSI-Service de Bioinformatique, Centre Bretagne, Plouzane, France.
Durand P; IFREMER-IRSI-Service de Bioinformatique, Centre Bretagne, Plouzane, France.
Alain S; UF8843 Génomique médicale, CHU Dupuytren, Limoges, France.

PLoS One ; 17(1): e0262953, 2022.

Article em En | MEDLINE | ID: mdl-35081137

ABSTRACT

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.

Assuntos

COVID-19/genética; Biologia Computacional; Sequenciamento de Nucleotídeos em Larga Escala; RNA Viral/genética; SARS-CoV-2/genética; Sequenciamento Completo do Genoma; Humanos

Texto completo

Imprimir

XML

PubMed Links

Buscar no Google

Texto completo: 1 Coleções: 01-internacional Base de dados: MEDLINE Assunto principal: RNA Viral / Biologia Computacional / Sequenciamento de Nucleotídeos em Larga Escala / Sequenciamento Completo do Genoma / SARS-CoV-2 / COVID-19 Tipo de estudo: Diagnostic_studies Limite: Humans Idioma: En Ano de publicação: 2022 Tipo de documento: Article

Texto completo

Imprimir

XML

PubMed Links

Buscar no Google