PhenoPLIER analyses of Asthma-COPD Overlap Syndrome (ACOS)

Contents

• Overview
• Quick demo
• Code and data
• Setup
• Running the code

Overview

TODO

Quick demo

TODO

Code and data

TODO

Setup

docker pull miltondp/phenoplier:asthma-copd

Running the code

TODO

Instructions for developers

You very likely do not need to follow these steps, unless you are a developer working on PhenoPLIER.

Setup Docker image

This only needs to be done once.

Pull the right Docker image for this project and tag it accordingly:

bash projects/asthma-copd/scripts/create_docker_image.sh

Load project-specific configuration

. projects/asthma-copd/scripts/env.sh

Download data/software

bash scripts/run_docker_dev.sh \
  python environment/scripts/setup_data.py --mode asthma-copd

Start JupyterLab server

bash scripts/run_docker_dev.sh

Run notebook from command-line

bash scripts/run_docker_dev.sh \
  bash nbs/run_nbs.sh projects/asthma-copd/nbs/05_gwas/05-gwas-inflation_factor.ipynb