Ehrdata is a data framework that comprises a FAIR storage format and a collection of Python libraries for performant access, alignment, and processing of uni- and multi-modal electronic health record datasets. This repository contains the core ehrdata library. See the ehrapy package for an analysis package that uses ehrdata to enable the analysis of electronic health record datasetes.
Please refer to the documentation, in particular, the API documentation.
ehrdata is under heavy construction, and its API not stable. If you find it potentially interesting for your work, reach out to us via the scverse zulip platform! We can help you using it and will be able to stabilize things you need.
If you have inputs on features, please do not hesitate to open an issue on our issue tracker!
You need to have Python 3.11 or newer installed on your system. If you don't have Python installed, we recommend installing Mambaforge.
There are several alternative options to install ehrdata:
- Install the latest release of
ehrdatafrom PyPI:
pip install ehrdata- Install the latest development version:
pip install git+https://github.com/theislab/ehrdata.git@mainSee the changelog.
For questions and help requests, you can reach out in the scverse discourse. If you found a bug, please use the issue tracker.
t.b.a