ehrapy overview

Ehrapy is a modular open-source Python framework designed for exploratory end-to-end analysis of heterogeneous epidemiology and electronic health record data.

The framework incorporates a series of analytical steps, from data extraction and quality control to the generation of low-dimensional representations. Complemented by rich statistical modules, ehrapy facilitates associating patients with disease states, differential comparison between patient clusters, survival analysis, trajectory inference, causal inference, and more. Leveraging ontologies, ehrapy further enables data sharing and training EHR deep learning models paving the way for foundational models in biomedical research.