See the report at http://leipzig.github.io/PAS_Premium/
The generation of this report is fully reproducible.
To run using Conda on linux-64:
wget https://repo.continuum.io/miniconda/Miniconda3-latest-Linux-x86_64.sh
sh Miniconda3-latest-Linux-x86_64.sh
# type "yes"
# allow this to install into your home
conda env create --file environment.yml
source activate pas
wget https://github.com/caseypt/phl-opa/archive/master.zip
cd phl-opa-master/
gem install bundle
bundle
gem install phl-opa
cd ..
snakemake clean
snakemake
From the Docker image:
docker run quay.io/leipzig/pas