This repository analyzes viral genomes from New York State using Nextstrain. This is a copy of the WA state build which is itself a copy of the original Nextstrain ncov.
Clone this repository.
git clone https://github.com/blab/ncov-ny.git
cd ncov-ny/
Modify build definitions, as needed, in ny_profile/ny/builds.yaml
.
Running:
snakemake --profile ny_profiles/ny/