README.md

1. Make a copy of code and input data

cd
git clone https://github.com/bxlab/cmdb-plot-vcfs
cd cmdb-plot-vcfs
cp ~/data/vcf_files/random_snippet.vcf .
cp ~/data/gtf_files/gencode.v41.annotation.gtf.gz .
gunzip *.gz

2. Create a new conda environment with required software

conda create --name day4-lunch
conda activate day4-lunch
conda install bedtools matplotlib

3. Run workflow

bash do_all.sh random_snippet.vcf gencode.v41.annotation.gtf