drugscreenpy

Self-controlled cohort drug-screening workflows for electronic health record data.

Getting started

Please refer to the documentation, in particular, the drug-screening tutorial and the API documentation.

Installation

You need to have Python 3.11 or newer installed on your system. If you don't have Python installed, we recommend installing uv.

There are several alternative options to install drugscreenpy:

1. Install the latest development version:

pip install git+https://github.com/xushenbo/drugscreenpy.git@main

Release notes

See the changelog.

Contact

For questions and help requests, you can reach out in the scverse discourse. If you found a bug, please use the issue tracker.

Citation

If you use drugscreenpy, please cite the drug-screening workflow:

@inproceedings{xu2024foundational,
  title={Foundational Model-aided Automatic High-throughput Drug Screening Using Self-controlled Cohort Study},
  author={Shenbo Xu and Raluca Cobzaru and Stan Finkelstein and Roy Welsch and Kenney Ng},
  booktitle={NeurIPS 2024 Workshop on AI for New Drug Modalities},
  year={2024},
  url={https://openreview.net/forum?id=30EakJqzF0}
}