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Large scale automated phylogenomic analysis of bacterial isolates and the Evergreen Online platform.

Communications biology - 20 Mar 2020

Szarvas Judit, Ahrenfeldt Johanne, Cisneros Jose Luis Bellod, Thomsen Martin Christen Frølund, Aarestrup Frank M, Lund Ole

Abstract excerpt

Public health authorities whole-genome sequence thousands of isolates each month for microbial diagnostics and surveillance of pathogenic bacteria. The computational methods have not kept up with the deluge of data and the need for real-time results. We have therefore created a bioinformatics pipeline for rapid subtyping and continuous phylogenomic analysis of bacterial samples, suited for large-scale...

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Identifiers

PMID: 32198478
DOI: 10.1038/s42003-020-0869-5
PMCID: PMC7083913

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