Part 1 notebook.ipynb is supposed to b run first followed by Part 2 notebook.ipynb
To follow the instructions for the tutorial, run the commands below
- Clone the repository using
git clone https://github.com/Tandem-Repeats-Analysis-WG/genotyping_repeats_tutorial.git
- Install Jupyter Bash kernel
pip install bash_kernel
python -m bash_kernel.install
- Run Part 1 notebook and select Bash from the 'New' menu in the notebook interface
jupyter notebook generating_consensus_tr_genotypes.ipynb
- Run Part 2 notebooks
jupyter notebook investigating_tr_variation.ipynb
jupyter notebook assiciation_example.ipynb