neherlab/CompBio2023

simple viral consensus assembly

Simple example of a pipeline that generates viral consensus sequences from reads

(teaching example -- not meant for production)

Setup

git clone https://github.com/neherlab/CompBio2023.git

cd CompBio2023

conda env create -f conda.yml

conda activate viral_assembly

Run the pipeline on example data

snakemake --cores 4 -p