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Nextflow pipelines for running the ARTIC network's fieldbioinformatics tools (, with a focus on ncov2019

CWL workflows related to virus genomics with focus on SARS-CoV-2.

Ongoing analysis of COVID-19 using Galaxy, BioConda and public research infrastructures

Workflows from the Industrial Biotechnology Innovation and Synthetic Biology Accelerator (IBISBA 1.0) project, which is funded by the European Union Horizon 2020 program INRAIA-02 under grant agreement 730976.

The workflows also appear on

Space: Independent Teams

Public web page:

INSaFLU (“INSide the FLU”) is an influenza-oriented bioinformatics free web-based platform for an effective and timely whole-genome-sequencing-based influenza laboratory surveillance.

nfcore/viralrecon is a bioinformatics analysis pipeline used to perform assembly and intrahost/low-frequency variant calling for viral samples. The pipeline currently supports metagenomics and amplicon sequencing data derived from the Illumina sequencing platform.

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Space: COVID-19 Biohackathon

Public web page: Not specified

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