What are the models used in phylogenetic analysis and what exactly is involved in Bayesian
evolutionary analysis using Markov chain Monte Carlo (MCMC) methods? How can you …

Bayesian methods have become very popular in molecular phylogenetics due to the
availability of user-friendly software for running sophisticated models of evolution. However …

Elaboration of Bayesian phylogenetic inference methods has continued at pace in recent
years with major new advances in nearly all aspects of the joint modelling of evolutionary …

Computational evolutionary biology, statistical phylogenetics and coalescent-based
population genetics are becoming increasingly central to the analysis and understanding of …

Since its introduction in 2001, MrBayes has grown in popularity as a software package for
Bayesian phylogenetic inference using Markov chain Monte Carlo (MCMC) methods. With …

When we started working on MrBayes in 1999-2000, we knew that there was a need for a
Bayesian MCMC package for phylogenetics, which was more flexible and easier to use than …

We present a new open source, extensible and flexible software platform for Bayesian
evolutionary analysis called BEAST 2. This software platform is a re-design of the popular …

The main limiting factor in Bayesian MCMC analysis of phylogeny is typically the efficiency
with which topology proposals sample tree space. Here we evaluate the performance of …

Programs for Bayesian inference of phylogeny currently implement a unique and fixed suite
of models. Consequently, users of these software packages are simultaneously forced to …

A key element to a successful Markov chain Monte Carlo (MCMC) inference is the
programming and run performance of the Markov chain. However, the explicit use of quality …