beast2

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

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

releases of beast2 packaged zip files in a reliable location

Models for dealing with morphological data

A package for BEAST 2 implementing generally useful stuff

Update your BEAST2 XML to account for constant sites

Nextflow pipeline for estimation of evolutionary rate using Bayesian statistics.

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.

A blazing fast rust-based tool for tree distances.

Birth Death Serial Skyline Model for BEAST2

TyCHE is a Bayesian phylogenetics BEAST2 package that infers time trees of populations with distinct evolutionary rates.

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

beast2 web development site

Python framework for reproducible divergence time estimation with BEAST2: calibration prior specification, validation, and diagnostics

Codon substitution models for DNA