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treeWAS is a tool for genome-wide association studies (GWAS) for microbes. The treeWAS algorithm uses a clonal population structure and homologous recombination to increase the precision of the computation.


GWAS study; Phylogenetics; Machine learning


  • Operation: Phylogenetic tree generation
  • Software interface: Command-line user interface; Library
  • Language: R
  • Operating system: Linux; Mac OS X; Microsoft Windows
  • License: GNU General Public License v>=2
  • Cost: Free
  • Version name: 1.0
  • Credit: Biotechnology and Biological Sciences Research Council, part of UK Research and Innovation (BBSRC), Medical Research Council UK (MRC).
  • Contact: Caitlin Collins caitiecollins _at_
  • Collection: -


Collins C, Didelot X "A phylogenetic method to perform genome-wide association studies in microbes that accounts for population structure and recombination." PLoS Comput. Biol. 2018; 14(2):e1005958
PMID: 29401456
PMCID: PMC5814097

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