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PEWO: a collection of workflows to benchmark phylogenetic placement
Benjamin Linard1,2, Nikolai Romashchenko1, Fabio Pardi1
1Computer Science Departement, LIRMM, University of Montpellier, CNRS, Montpellier 34095, France.
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 Placement Evaluation WOrkflows (PEWO), the first benchmarking tool dedicated to PP assessment. Its automated workflows can evaluate PP at many levels, from parameter optimization 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 support for future developments and applications of PP.
Availability And Implementation:
https://github.com/phylo42/PEWO.
Supplementary Information:
Supplementary data are available at Bioinformatics online.
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