BEAST
The Bayesian Evolutionary Analysis by Sampling Trees (BEAST) software package has become a primary tool for Bayesian phylogenetic and phylodynamic inference from genetic sequence data. BEAST unifies molecular phylogenetic reconstruction with complex discrete and continuous trait evolution, divergence-time dating, and coalescent demographic models in an efficient statistical inference engine using Markov chain Monte Carlo integration. A convenient, cross-platform, graphical user interface allows the flexible construction of complex evolutionary analyses.
Features:
- Time trees
- Population size dynamics
- Evolutionary rate estimation
- Phylogeography models
- Epidemiological models
- Ancestral state reconstruction
- Synonymous/non-synonymous rate estimation
Citation: Bayesian phylogenetic and phylodynamic data integration using BEAST 1.10
Suchard, Lemey, Baele, Ayres, Drummond & Rambaut (2018) Virus Evolution, 4: vey016, https://doi.org/10.1093/ve/vey016 https://doi.org/10.1093/ve/vey016