beast2

Download        : docker pull ghcr.io/autamus/beast2
Compressed Size : 227MB

Description

BEAST is a cross-platform program for Bayesian inference using MCMC 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.

Usage

Pull (Download)

To download the latest version of beast2 run,

docker pull ghcr.io/autamus/beast2:latest

or to download a specific version of beast2 run,

docker pull ghcr.io/autamus/beast2:2.6.3

Run

To run the container as an application run,

docker run --rm ghcr.io/autamus/beast2 beast2 --version

or to run the container in an interactive session run,

docker run -it --rm ghcr.io/autamus/beast2 bash

Mounting volumes between the container and your machine

To access files from your machine within the beast2 container you’ll have to mount them using the -v external/path:internal/path option.

For example,

docker run -v ~/Documents/Data:/Data ghcr.io/autamus/beast2 beast2 /Data/myData.csv

which will mount the ~/Documents/Data directory on your computer to the /Data directory within the container.

HPC

If you’re looking to use this container in an HPC environment we recommend using Singularity-HPC to use the container just as any other module on the cluster. Check out the SHPC beast2 container here.