Beast 2.06 Download

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How to Download and Install BEAST 2.06 for Phylogenetic Analysis

BEAST 2 is a cross-platform program for Bayesian phylogenetic analysis of molecular sequences. It estimates rooted, time-measured phylogenies using strict or relaxed molecular clock models. It can be used as a method of reconstructing phylogenies but is also a framework for testing evolutionary hypotheses without conditioning on a single tree topology[^1^].

In this article, we will show you how to download and install BEAST 2.06 for your operating system. We will also briefly introduce some of the features and packages available in BEAST 2.

Downloading BEAST 2.06

The latest version of BEAST 2 is version 2.7.4, which was released on December 4, 2022[^2^]. However, if you need to use an older version of BEAST 2 for compatibility reasons, you can still download BEAST 2.06 from the BEAST 2 website.

To download BEAST 2.06, select one of the following links according to your operating system:

Download for Windows (90MB)

Download for Mac OS X (87MB)

Download for Linux x86 (91MB)

After downloading the file, you need to unzip it or mount it depending on your operating system.

Installing BEAST 2.06

To install BEAST 2.06, you need to run the installer file that is included in the downloaded package. The installer will guide you through the installation process and create shortcuts for launching BEAST 2 and its graphical user interface (GUI) called BEAUti.

The installer will also ask you to specify a directory where BEAST 2 packages will be stored. Packages are extensions of BEAST 2 that provide additional models and analysis methods that are not part of the core program[^1^]. You can choose any directory that you have write access to, but we recommend using the default directory suggested by the installer.

Using BEAST 2.06

To use BEAST 2.06, you need to create an XML file that specifies the data, models, priors, and MCMC settings for your analysis. You can create this XML file using BEAUti, which is a GUI that allows you to set up standard analyses and manage packages[^1^]. To launch BEAUti, you can use the shortcut created by the installer or run the beauti script from the command line.

Once you have created an XML file using BEAUti, you can run it using BEAST 2 by using the shortcut created by the installer or running the beast script from the command line. You can also use other programs such as LogCombiner and TreeAnnotator to process and analyze the output files generated by BEAST 2[^1^].

Features and Packages of BEAST 2

BEAST 2 has many features that make it a powerful and flexible tool for phylogenetic inference. Some of these features are:

It supports multiple data types such as nucleotides, amino acids, codons, binary characters, microsatellites, and dates[^1^].

It allows integration of different data sources such as sequences, fossils, traits, geographic locations, and gene expression[^1^].

It implements various models of sequence evolution such as GTR, HKY, TN93, JC69, LG, WAG, GY 061ffe29dd