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The program BEAUti is a user-friendly program for setting the model parameters for BEAST.Run BEAUti by double clicking on its icon or invoking it from the command-line.

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Loading the NEXUS file To load a NEXUS format alignment, simply select the #NEXUS begin data; dimensions ntax=12 nchar=898; format datatype=dna interleave=no gap=-; matrix Tarsius_syrichta AAGTTTCATTGGAGCCACCACTCTTATAATTGCCCATGGCCTCACC Lemur_catta AAGCTTCATAGGAGCAACCATTCTAATAATCGCACATGGCCTTACA Homo_sapiens AAGCTTCACCGGCGCAGTCATTCTCATAATCGCCCACGGGCTTACA Pan AAGCTTCACCGGCGCAATTATCCTCATAATCGCCCACGGACTTACA Gorilla AAGCTTCACCGGCGCAGTTGTTCTTATAATTGCCCACGGACTTACA Pongo AAGCTTCACCGGCGCAACCACCCTCATGATTGCCCATGGACTCACA Hylobates AAGCTTTACAGGTGCAACCGTCCTCATAATCGCCCACGGACTAACC Macaca_fuscata AAGCTTTTCCGGCGCAACCATCCTTATGATCGCTCACGGACTCACC M_mulatta AAGCTTTTCTGGCGCAACCATCCTCATGATTGCTCACGGACTCACC M_fascicularis AAGCTTCTCCGGCGCAACCACCCTTATAATCGCCCACGGGCTCACC M_sylvanus AAGCTTCTCCGGTGCAACTATCCTTATAGTTGCCCATGGACTCACC Saimiri_sciureus AAGCTTCACCGGCGCAATGATCCTAATAATCGCTCACGGGTTTACT ; end; begin assumptions; charset firsthalf = 1-449; charset secondhalf = 450-898; end; end; tab at the top of the main window.

You will see the panel that allows you to create sets of taxa.

Sampling too often will result in very large files with little extra benefit in terms of the precision of the analysis.

Sample too infrequently and the log file will not contain much information about the distributions of the parameters.

But this will be automatically checked, in this case, when we put a proper prior on dropdown menu: Priors The Priors tab allows priors to be specified for each parameter in the model.

Last modified 31-Aug-2018 03:01