EmpPrior

EmpPrior is a software tool to estimate branch-length priors for phylogenetics. EmpPrior queries the TreeBASE database to find data similar to taxonomic and genetic sampling at hand and utilizes them to report branch-length priors for further analysis. The EmpPrior consists of EmpPrior-search for querying TreeBASE and EmpPrior-fit for parameterizing branch-length distributions.

Topic

Phylogenetics;Applied mathematics

Detail

  • Operation: Data retrieval

  • Software interface: Graphical user interface

  • Language: R;Java

  • License: GNU General Public License v3

  • Cost: Free

  • Version name: -

  • Credit: The National Institute of Justice and startup funds from Louisiana State University.

  • Input: -

  • Output: -

  • Contact: jjanders@us.ibm.com

  • Collection: -

  • Maturity: -

Publications

  • EmpPrior: using outside empirical data to inform branch-length priors for Bayesian phylogenetics.
  • Andersen JJ, Nelson BJ, Brown JM. EmpPrior: using outside empirical data to inform branch-length priors for Bayesian phylogenetics. BMC Bioinformatics. 2016 Jun 24;17:253.
  • https://doi.org/10.1186/s12859-016-1132-4
  • PMID: 27342194
  • PMC: PMC4919878

Download and documentation

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