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BEAST Software - Bayesian Evolutionary Analysis Sampling …
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 …
First Tutorial | BEAST Documentation
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 …
Estimating rates and dates from time-stamped sequences
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 …
Frequently Asked Questions | BEAST Documentation
We have renamed the release that would have been called BEAST v1.10.5 as BEAST X v10.5.0. This is to distinguish it from the independent project called BEAST 2 – see: …
Phylogeographic diffusion in discrete space | BEAST Documentation
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 …
Downloading and installing BEAST on UNIX/Linux
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).
BEAUti & The BEAST and other programs | BEAST Documentation
BEAST | Bayesian Evolutionary Analysis Sampling Trees. This is the main program that takes a control file generated by BEAUti and performs the analysis.
LogCombiner | BEAST Documentation
BEAST will often write numbers in scientific notation to maintain precision. Some software programs may have problems with this, so this option will convert these to decimal numbers. …
FigTree | BEAST Documentation
FigTree is a program for viewing trees, including summary information produced by TreeAnnotator, and producing publication quality figures.
BEAGLE | BEAST Documentation
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 …
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