# PLINK
PLINK (opens new window) 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.
# How to install PLINK 1
Install PLINK 1 (opens new window) with the following command:
sudo apt install plink
And use the following executable:
plink1 --noweb
# How to install PLINK 1.9
Install PLINK 1.9 (opens new window) with the following commands:
Make sure you have your personal bin directory in place:
mkdir -p ~/bin && source ~/.profile
Download the latest binary release of PLINK 1.9:
wget -P ~/bin/ https://s3.amazonaws.com/plink1-assets/plink_linux_x86_64_20231211.zip
Unpack the archive:
unzip ~/bin/plink_linux_x86_64_20231211.zip -d ~/bin/
Remove archive:
rm -v ~/bin/plink_linux_x86_64_20231211.zip
Test by printing the version:
plink --version
You can also install PLINK 1.9 with Bioconda. See our Anaconda and Bioconda tutorial for more details.
# How to install PLINK 2
# Using conda
Installing PLINK 2 (opens new window) is a little more cumbersome as it is not available in Ubuntu's package repositories.
You can either use Conda to install Plink2 package (opens new window) or follow with binary release below.
To install package into your Conda environment use this command:
conda install -c bioconda plink2
# Using binary release
To download and unpack the binary for PLINK 2 follow these steps.
Make sure you have your personal bin directory in place:
mkdir -p ~/bin && source ~/.profile
Download the latest binary release of PLINK 2:
wget -P ~/bin/ http://s3.amazonaws.com/plink2-assets/plink2_linux_x86_64_latest.zip
Unzip the archive:
unzip ~/bin/plink2_linux_x86_64_latest.zip -d ~/bin/
Remove archive:
rm -v ~/bin/plink2_linux_x86_64_latest.zip
You can now use the following executable:
plink2
# Troubleshooting
Install unzip if missing:
sudo apt install -y unzip