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Article Dans Une Revue Bioinformatics Année : 2020

PEWO: a collection of workflows to benchmark phylogenetic placement

Résumé

Motivation: Phylogenetic placement (PP) is a process of taxonomic identification for which several tools are now available. However, it remains difficult to assess which tool is more adapted to particular genomic data or a particular reference taxonomy. We developed PEWO, the first benchmarking tool dedicated to PP assessment. Its automated workflows can evaluate PP at many levels, from parameter optimisation for a particular tool, to the selection of the most appropriate genetic marker when PP-based species identifications are targeted. Our goal is that PEWO will become a community effort and a standard supportred for future developments and applications of PP. Availability: https://github.com/phylo42/PEWO
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Dates et versions

hal-02905244 , version 1 (23-07-2020)

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Benjamin Linard, Nikolai Romashchenko, Fabio Pardi, Eric Rivals. PEWO: a collection of workflows to benchmark phylogenetic placement. Bioinformatics, 2020, 36 (21), pp.5264-5266. ⟨10.1093/bioinformatics/btaa657⟩. ⟨hal-02905244⟩
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