The vivaxGEN Molecular Epidemiology Analytics (MEA) Pipeline provides scripts, Snakemake workflow rules and tools to perform VCF processing, population genetics and association study analysis.
To install, execute the following command:
"${SHELL}" <(curl -L https://raw.githubusercontent.com/vivaxgen/mea-pipeline/main/install.sh)
The documentation for the vivaxGEN MEA-Pipeline can be found at main documentation site