What is BEAST? BEAST is a cross-platform program for Bayesian analysis of molecular sequences using MCMC. It is entirely orientated towards rooted, time-measured phylogenies inferred using strict …

Running BEAST for the first time This tutorial will guide you through running BEAST and some of its accessory programs to do a simple phylogenetic analysis. If you haven’t already, download and …

Installing BEAST BEAST has been developed in Java, which allows the same code to run on any platform that has the Java software installed. We have also created packages for each of the …

Tracer (now at version 1.7.2) is a software package for visualising and analysing the MCMC trace files generated through Bayesian phylogenetic inference. Tracer provides kernel density estimation, …

BEAST is a cross-platform program for Bayesian analysis of molecular sequences using MCMC. It is entirely orientated towards rooted, time-measured phylogenies inferred using strict or relaxed …

FigTree is a program for viewing trees, including summary information produced by TreeAnnotator, and producing publication quality figures.

Downloading and installing BEAST on UNIX/Linux BEAST is a software package for phylogenetic analysis with an emphasis on time-scaled trees.

This realisation includes all the transitions (Markov jumps) between states along phylogenetic branches and the time (Markov rewards) spent in the states between two transitions. This tutorial discusses …

To inform BEAUti/BEAST about the sampling dates of the sequences, go to the Tips menu and select the “Use tip dates” option. By default all the taxa are assumed to have a date of zero (i.e. the …

Introduction The first step will be to convert an alignment file in fasta format into a BEAST XML input file. This is done using the program BEAUti (this stands for Bayesian Evolutionary Analysis Utility). This …