# Notebooks

The following is a short description of the Jupyter notebooks that are available in this repository:

- [Data curation](data_curation.ipynb)
- [Generating cell line embeddings](cell_line_embeddings.ipynb)
- [Finding the best Morgan fingerprint parameters via Optuna](best_fingerprint_search.ipynb)
- [Comparing deep learning model (DNN) and XGBoost (XGB) performance](compare_dnn_xgb_distributions.ipynb)
- Plotting of [paper results](plot_experimental_results.ipynb) and [dataset information](plot_dataset_info.ipynb)
- A [tutorial](protac_degradation_predictor_tutorial.ipynb) on how to use the pretrained models for predicting degradation activity