plink

Download        : docker pull ghcr.io/autamus/plink
Compressed Size : 30MB

Description

PLINK is a free, open-source whole genome association analysis toolset, designed to perform a range of basic, large-scale analyses in a computationally efficient manner.

Usage

Pull (Download)

To download the latest version of plink run,

docker pull ghcr.io/autamus/plink:latest

or to download a specific version of plink run,

docker pull ghcr.io/autamus/plink:1.9.beta.6.10

Run

To run the container as an application run,

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

or to run the container in an interactive session run,

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

Mounting volumes between the container and your machine

To access files from your machine within the plink 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/plink plink /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 plink container here.