PLoS ONE (Jan 2022)

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

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

Journal volume & issue
Vol. 17, no. 1

Abstract

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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.