This repository contains the scripts needed to reproduce the analysis published in Parental and stochastic skewing of X-chromosome inactivation predicts phenotypic penetrance of fragile X syndrome (citation link to come)
To reproduce this work:
- Clone this repository
git clone https://github.com/AllenInstitute/chromosome-network-modeling.git
- Install requirements (example uses
virtualenv
, one could also useconda
or other enviroment manager):- Install virtualenv if necessary:
python3 -m pip install --user virtualenv
- Create a new environment
cd chromosome-network-modeling python3 -m venv env
- Activate and install requirements
source env/bin/activate pip install -r requirements.txt
- To reproduce the analysis, run the following script:
python3 run_test_distance_sample.py