babette is an R package to work with BEAST2

LinguaPhylo: A language for describing, visualising and simulating probabilistic phylogenetic models

Real time and remote MCMC trace monitoring with BEASTIARY.

R package to generate the same BEAST2 XML parameter files as generated by BEAUti 2

R package to run BEAST2

releases of beast2 packaged zip files in a reliable location

Models for dealing with morphological data

This BEAST2 package provides MCMC proposals and post-processing tools for sampling trees containing sampled ancestors

A package for BEAST 2 implementing generally useful stuff

Update your BEAST2 XML to account for constant sites

Bayesian phylodynamic methods in BEAST2

A dedicated pipeline designed for the inference of COVID19 transmission networks in a population complete with the prediction of unsampled sources of infection using SARS-CoV-2 genomic sequences. Our pipeline is built upon the BEAST2 and TransPhylo software.

R package that estimates the error BEAST2 makes from a given phylogeny

Birth Death Serial Skyline Model for BEAST2

beast2 web development site

Nextflow pipeline for estimation of evolutionary rate using Bayesian statistics.

Local clock model using relaxed and strict clocks

Dynamic BEAST2 XML files

Example for BEAST v2.5 paper

Data and scripts to reproduce the molecular clock dating analyses presented in "Ancient bacterial genomes reveal a formerly unknown diversity of Treponema pallidum strains in early modern Europe (Majander et al.)