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NCBO hosts a repository of biomedical ontologies.  These ontologies are stored in formats that are not understood by i2b2.  A tool has been developed to not only extract these ontologies via bioportal REST services, but to transform them into a format that is understood by the i2b2 ONT cell.

Tutorials

  i2b2 Ontology Tutorial  Step by step example of how metadata trees are created and configured using both Edit View and Extraction tool

 NCBO_Extraction_Overview   Similar to tutorial above but concentrates on what is needed to work with the NCBO Extraction tool.

NCBO Extraction tool version 1.0 NCBO_Extraction_Users_Guide_1-0 User's Guide for the command line based NCBO Extraction tool

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