PEWO: a collection of workflows to benchmark phylogenetic placement


Abstract 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 support for future developments and applications of phylogenetic placement. Availability Supplementary information Supplementary data are available at Bioinformatics online.

Benjamin Linard
researcher at Spygen company, former postdoctoral fellow in bioinformatics

Trained in bioinformatics, worked at National Museum and at the LIRMM, before joining SpyGen