BEAST is built on a large body of prior work and appropriate citations for individual modules, models and components will be listed when BEAST is run. BEAST-Users mailing list. Users are strongly advised to join the BEAST mailing-list. This will be used to announce new versions and advise users about bugs and problems.

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 common operating systems to provide a user-interface that is ‘native’ and familiar.

BEAST can be downloaded from the following link: BEAST X v10.5.0-beta5 - UNIX/Linux version 46.2MB; This will download a compressed tar archive (a ‘.tgz’ file).

BEAST can also import FASTA files (as long as the sequences have been aligned) or BEAST XML files (in which case the data will imported but the models and settings will not). Once loaded, the alignment will be displayed in the main window in a table: If you want to look at the actual alignment, double click on the row in the table.

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

Using BEAGLE with BEAST BEAGLE is a high-performance library that can perform the core calculations at the heart of most Bayesian and Maximum Likelihood phylogenetics package. It can make use of highly-parallel processors such as those in …

This tutorial can be easily adapted to display and summarize annotated summary BEAST trees and prepare publication-ready figures for other datasets. FigTree - this is an application for displaying and printing molecular phylogenies, in particular those obtained using BEAST.

Jun 17, 2016 · Download BEAST v1.8.4 binaries for Mac, Windows and UNIX/Linux Version 1.8.4 released 17th June 2016 New Features: New structured list of citations printed to screen before running. Option ('-citation_file') to write citation list to file.

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 is a user-friendly program for setting the evolutionary model and options for the MCMC analysis.

Here, we highlight some recent modifications we have made to make the analysis of tens of thousand of taxa in BEAST feasible on a time-scale that can help inform public health responses. Many of these improvements are based on re-implementations of approaches used in other phylogenetic software, and we are grateful to the entire phylogenetic ...