---
name: "beauti2"
section: "1"
platform: "linux"
package: "beast2-mcmc"
version: "2.7.6+dfsg-1"
release: "Debian 13 (Trixie)"
platforms: ["linux"]
url: "https://new.carta.tech/beauti2"
---

# beauti2(1)

matches beast2-mcmc

## 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**

## DESCRIPTION

BEAST is a cross-platform program for Bayesian MCMC analysis of molecular sequences. It is entirely orientated towards rooted, time-measured phylogenies inferred 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. BEAST uses MCMC to average over tree space, so that each tree is weighted proportional to its posterior probability. Included is a simple to use user-interface program for setting up standard analyses and a suit of programs for analysing the results.

This BEAUTI version matches BEAST2-MCMC.

## OPTIONS

**-template** \[template file\] : BEAUti template to be used. Default templates/Standard.xml

**-nex** \[nexus data file\] : nexus file to be read using template, multiple **-nex** arguments are allowed

**-xmldat** \[beast xml file\] : as **-nex** but with BEAST 1 or 2 xml file instead of nexus file

**-xml** \[beast file\] : BEAST 2 XML file to be loaded

**-exitaction** \[writexml\|usetemplate\|usexml\] : what to do after processing arguments

**-out** \[output file name\] : file to be written

**-capture** : captures stdout and stderr and make them available under Help/Messages menu

**-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.