NHS data workflow example

An example workflow using NHS synthetic data implemented using Snakemake to process NHS artificial data.

The contents of this repository are organised following Snakemake reproducibility guidelines.

Installation

Create a virtual environment

python -m venv .venv

Activate that environment (the specific command depends upon operating system)

source .venv/bin/activate

Install dependencies

pip install -r requirements.txt

Usage

Run the workflow using the command line interface

snakemake <target_output_file>