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

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 pipel...

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Detalles Bibliográficos
Autores principales: Tilloy, Valentin, Cuzin, Pierre, Leroi, Laura, Guérin, Emilie, Durand, Patrick, Alain, Sophie
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Public Library of Science 2022
Materias:
Research Article
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8791494/
https://www.ncbi.nlm.nih.gov/pubmed/35081137
http://dx.doi.org/10.1371/journal.pone.0262953
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author Tilloy, Valentin
Cuzin, Pierre
Leroi, Laura
Guérin, Emilie
Durand, Patrick
Alain, Sophie
author_facet Tilloy, Valentin
Cuzin, Pierre
Leroi, Laura
Guérin, Emilie
Durand, Patrick
Alain, Sophie
author_sort Tilloy, Valentin
collection PubMed
description 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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spelling pubmed-87914942022-01-27 ASPICov: An automated pipeline for identification of SARS-Cov2 nucleotidic variants Tilloy, Valentin Cuzin, Pierre Leroi, Laura Guérin, Emilie Durand, Patrick Alain, Sophie PLoS One Research Article 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. Public Library of Science 2022-01-26 /pmc/articles/PMC8791494/ /pubmed/35081137 http://dx.doi.org/10.1371/journal.pone.0262953 Text en © 2022 Tilloy et al https://creativecommons.org/licenses/by/4.0/This is an open access article distributed under the terms of the Creative Commons Attribution License (https://creativecommons.org/licenses/by/4.0/) , which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.
spellingShingle Research Article
Tilloy, Valentin
Cuzin, Pierre
Leroi, Laura
Guérin, Emilie
Durand, Patrick
Alain, Sophie
ASPICov: An automated pipeline for identification of SARS-Cov2 nucleotidic variants
title ASPICov: An automated pipeline for identification of SARS-Cov2 nucleotidic variants
title_full ASPICov: An automated pipeline for identification of SARS-Cov2 nucleotidic variants
title_fullStr ASPICov: An automated pipeline for identification of SARS-Cov2 nucleotidic variants
title_full_unstemmed ASPICov: An automated pipeline for identification of SARS-Cov2 nucleotidic variants
title_short ASPICov: An automated pipeline for identification of SARS-Cov2 nucleotidic variants
title_sort aspicov: an automated pipeline for identification of sars-cov2 nucleotidic variants
topic Research Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8791494/
https://www.ncbi.nlm.nih.gov/pubmed/35081137
http://dx.doi.org/10.1371/journal.pone.0262953
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