phylofactor specifications


Unique identifier OMICS_25257
Name phylofactor
Software type Package/Module
Interface Command line interface
Restrictions to use None
Output data a “phylofactor” object which summarize, plot, cross-validate, run null simulations, and parse out the information from phylofactorization.
Operating system Unix/Linux
Programming languages C, R
Computer skills Advanced
Stability Stable
Maintained Yes



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  • person_outline Alex Washburne <>

Publication for phylofactor

phylofactor in publication

PMCID: 5345826
PMID: 28289558
DOI: 10.7717/peerj.2969

[…] ation can be tied back to splits in a given phylogenetic tree and thereby allow researchers to annotate the microbial phylogeny from the results of microbiome datasets., we show with simulations that phylofactor is able to correctly identify affected clades. we then phylofactor a dataset of human oral and fecal microbiomes to determine the phylogenetic factors driving variation in human body site  […]

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phylofactor institution(s)
Department of Microbiology and Immunology, Montana State University, Bozeman, MT, USA; Program for Computational Biology and Bioinformatics, Duke University, NC, USA; Center for Genomic and Computational Biology, Duke University, Durham, NC, USA; Department of Computer Science, University of California San Diego, La Jolla, CA, USA; Department of Pediatrics, University of California San Diego, La Jolla, CA, USA; Department of Statistical Science, Mathematics, and Computer Science, Duke University, Durham, NC, USA
phylofactor funding source(s)
Supported by the Defense Advanced Research Projects Agency (DARPA; D16AP00113).

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