RDF to i2b2 Conversion
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This Dockerized python tool converts RDF knowledge graphs to i2b2 simple databases.
Given an ontology RDF graph, it will output a complete ONT cell schema in CSV format.
Given a RDF graph of instances of the former ontology graph, it will output a complete CRC cell schema in CSV format.
All CSV tables should then be pushed to your i2b2 database (loading script not provided).


This was developed as a subproject at Lausanne University Hospital (CHUV) by Jules Fasquelle and Jean Louis Raisaro.
It was published at the MIE2022 conference : https://pubmed.ncbi.nlm.nih.gov/35612099/


Full user documentation

is

and run instructions are available at https://rdf-to-i2b2-converter.readthedocs.io/en/latest/

The docker files are on the following repositories:
- Automatic ontology


Docker files - Ontology converter - https://github.com/CHUV-DS/docker-ontology-converter
Docker files -

Automatic data

Data samples converter - https://github.com/CHUV-DS/docker-data-converter

-

Source python files - https://github.com/CHUV-DS/RDF-i2b2-converter


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