BEAST X for Bayesian phylogenetic, phylogeographic and phylodynamic inference

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

doi:10.1038/s41592-025-02751-x

articleNature MethodsJul 7, 2025HYBRID OA

BEAST X for Bayesian phylogenetic, phylogeographic and phylodynamic inference

GBGuy Baele XJXiang Ji GWGabriel W. Hassler JTJohn T. McCrone YSYucai Shao

Rega Institute for Medical Research · KU Leuven · +6 more institutions

PubMed

Indexed incrossrefpubmed

Abstract

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.

Citation impact

55

total citations

FWCI: 185.87
Percentile: 100%
References: 41

Citations per year

Authors

11

Topics & keywords

Topics

Keywords

Coalescent theory
Phylogenetic tree
Inference
Evolutionary biology
Phylogenetics
Bayesian probability
Computer science
Leverage (statistics)

No related works found for this paper.