ViralFlow v1.0-a computational workflow for streamlining viral genomic surveillance.
Alexandre Freitas da SilvaAntonio Marinho da Silva NetoCleber Furtado AksenenPedro Miguel Carneiro JeronimoFilipe Zimmer DezordiSuzana Porto AlmeidaHudson Marques Paula CostaRichard Steiner SalvatoTulio de Lima CamposGabriel da Luz WallauOn Behalf Of The Fiocruz Genomic NetworkPublished in: NAR genomics and bioinformatics (2024)
ViralFlow v1.0 is a computational workflow developed for viral genomic surveillance. Several key changes turned ViralFlow into a general-purpose reference-based genome assembler for all viruses with an available reference genome. New virus-agnostic modules were implemented to further study nucleotide and amino acid mutations. ViralFlow v1.0 runs on a broad range of computational infrastructures, from laptop computers to high-performance computing (HPC) environments, and generates standard and well-formatted outputs suited for both public health reporting and scientific problem-solving. ViralFlow v1.0 is available at: https://viralflow.github.io/index-en.html.