Note: work in progress

This repository contains the BioHackathon-Europe 2021 attempt to align Beacon with OMOP data model (stored in Postgres database)

The UI designed for this project can be found within the BH2021-omop-frontend repo

Beacon v2.x

This repository is an implementation of the Beacon v2.0 specification and contains:

• the (Python 3.7+) source code for beacon,
• instructions for a local deployment (using docker and docker-compose),

Version notes

• Fusions (mateName) are not supported.

Acknowlegments

We thank the CSC Finland team for their contribution with a python implementing of version 1. They, in turn, got help from members of NBIS and DDBJ.

Future works

• Increase functionality of the implementation
  • allow for querying using any default model(s) + easy methods/very detailed descriptions for implementers to include custom models
  • better integration with the OMOP CDM
• Look at alternate routes to integration such as leveraging the OHDSI webapi which is installed on top of all EHDEN OMOP CDM DB's
• Increase functionality of the UI