BEAST 2: A Software Platform for Bayesian Evolutionary Analysis

We present a new open source, extensible and flexible software platform for Bayesian evolutionary analysis called BEAST 2. This software platform is a re-design of the popular BEAST 1 platform to correct structural deficiencies that became evident as the BEAST 1 software evolved. Key among those deficiencies was the lack of post-deployment extensibility. BEAST 2 now has a fully developed package management system that allows third party developers to write additional functionality that can be directly installed to the BEAST 2 analysis platform via a package manager without requiring a new software release of the platform. This package architecture is showcased with a number of recently published new models…

• NS
  National Science Foundation

  Awards: DMS-1264153, 1264153, 0856099
• NE
  National Evolutionary Synthesis Center
• RS
  Royal Society
• RS
  Royal Society Te Apārangi
• NI
  National Institutes of Health

  Awards: HG006139, R01 HG006139