<p>Here we present the open-source and cross-platform BEAST X software that combines molecular phylogenetic reconstruction with complex trait evolution, divergence-time dating and coalescent demographics in an efficient statistical inference engine. <span>BEAST X</span> significantly advances the flexibility and scalability of evolutionary models supported. Novel clock and substitution models leverage a large variety of evolutionary processes; discrete, continuous and mixed traits with missingness and measurement errors; and fast, gradient-informed integration techniques that rapidly traverse high-dimensional parameter spaces.</p>

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BEAST X for Bayesian phylogenetic, phylogeographic and phylodynamic inference

  • Guy Baele,
  • Xiang Ji,
  • Gabriel W. Hassler,
  • John T. McCrone,
  • Yucai Shao,
  • Zhenyu Zhang,
  • Andrew J. Holbrook,
  • Philippe Lemey,
  • Alexei J. Drummond,
  • Andrew Rambaut,
  • Marc A. Suchard

摘要

Here we present the open-source and cross-platform BEAST X software that combines molecular phylogenetic reconstruction with complex trait evolution, divergence-time dating and coalescent demographics in an efficient statistical inference engine. BEAST X significantly advances the flexibility and scalability of evolutionary models supported. Novel clock and substitution models leverage a large variety of evolutionary processes; discrete, continuous and mixed traits with missingness and measurement errors; and fast, gradient-informed integration techniques that rapidly traverse high-dimensional parameter spaces.