BEAUTI2(1)

💖 BEAUTI2 💖

okay bestie, so this is beauti2, a User Command, and it matches beast2-mcmc — yes, that BEAST2. no cap, she's the setup queen for your whole Bayesian MCMC era. 🧬✨

✨ NAME ✨

beauti2 — matches beast2-mcmc 🫶

🌸 SYNOPSIS 🌸

beauti2 -template [template file] -nex [nexus data file] -xmldat [beast
xml file] -xml [beast file] -exitaction [writexml|usetemplate|usexml]
-out [output file name] -capture -v -version -h -help

that's the whole vibe check right there, fr fr. 💅

🦋 DESCRIPTION 🦋

okay so listen. BEAST is a cross-platform program for Bayesian MCMC analysis of molecular sequences. like, cross-platform cross-platform. she is entirely orientated towards rooted, time-measured phylogenies inferred using strict or relaxed molecular clock models. no cap.

and the way that she 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?? main character energy, honestly. 🌈

BEAST uses MCMC to average over tree space, so that each tree is weighted proportional to its posterior probability. obsessed with that for her. 💖

Included is a simple to use user-interface program for setting up standard analyses and a suit of programs for analysing the results. so you get the pretty buttons and the results tools. iconic.

This BEAUTI version matches BEAST2-MCMC. periodt. 🎀

💅 OPTIONS 💅

• -template [template file] — the BEAUti template to be used. default is templates/Standard.xml ✨
• -nex [nexus data file] — nexus file to be read using the template. and bestie, multiple -nex arguments are allowed — stack 'em up, she can handle it. 🍓
• -xmldat [beast xml file] — same as -nex but with a BEAST 1 or 2 xml file instead of a nexus file. like, the same energy, different file. 🙈
• -xml [beast file] — a BEAST 2 XML file to be loaded 👑
• -exitaction [writexml|usetemplate|usexml] — what to do after processing arguments. pick your fighter. 💀
• -out [output file name] — the file to be written 📝
• -capture — captures stdout and stderr and makes them available under the Help/Messages menu. lowkey so handy. 🔥
• -v, -version — print version ⭐
• -h, -help — print this help message 🌸

💜 AUTHOR 💜

This manpage was written by Andreas Tille for the Debian distribution and can be used for any other usage of the program. king behaviour, we love a manpage author who shares. 🫶

and that's the whole page, bestie! beauti2 2.4.1 — dated May 2016, and this is the BEAUTI2(1) manual page. go set up some analyses, you've got this 💖✨🎀🦋🌸