CARE-SM to OMOP-CDM Mapping Service

Overview

The CARE-SM to OMOP-CDM Mapping Service is designed to facilitate the integration of clinical and research data from CARE-SM into the OMOP Common Data Model (CDM).

CARE2OMOP ETL workflow

Table of Contents

• Usage
• Docker and API
• License

Usage

1. Configure the service: Create the configuration file (config.yaml) with your Triplestore credentials details.

   TRIPLESTORE_URL: https://graphdb.triplestore/endpoint
   TRIPLESTORE_USERNAME: username
   TRIPLESTORE_PASSWORD: password

2. Execute main.py:

   python main.py

   configuration.yaml needs to be in the same path as main.py:

   care2omop/
   ├── configuration.yaml
   ├── main.py
   

Docker and API

Docker and API as a web service is under development.

License

This project is licensed under the MIT License. See the LICENSE file for details.

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