eds-scikit 0.1.0

OMOP data analysis in Python

EDS-Scikit is a tool to assist data scientists working on the AP-HP's Clinical Data Warehouse. It is specifically targeted for OMOP-standardized data. It main goals are to:

• Ease access and analysis of data
• Allow a better transfer of knowledge between projects
• Improve research reproduciblity

Development

This library is developed and maintained by the core team of AP-HP’s Clinical Data Warehouse (EDS) with the strong support of Inria's SODA team.

How to use

Please check the online documentation for more informations. You will find

• Detailed explanation of the project goal and working principles
• A complete API documentation
• Various Jupyter Notebooks describing how to use various functionnalities of SciKit-EDS
• And more !

Requirements

EDS-Scikit stands on the shoulders of Spark 2.4 which requires:

• Python ~3.7.1
• Java 8

Installation

You can install EDS-Scikit via pip:

pip install eds-scikit

:warning: If you work in AP-HP's ecosystem (EDS), please install additionnal features via:

pip install "eds-scikit[aphp]"

You can now import the library via

import eds_scikit

Contributing

• You want to help on the project ?
• You developped an interesting feature and you think it could benefit other by being integrated in the library ?
• You found a bug ?
• You have a question about the library ?
• ...

Please check our contributing guidelines.

For AP-HP users, also feel free to use the dedicated Zulip channel. (If you need a permission to join the channel, simply message one of the developper)

Acknowledgment

We would like to thank the following funders:

• Assistance Publique – Hôpitaux de Paris
• AP-HP Foundation