A tool for pulling NIMH RDoC informed transdiagnostic phenotypes from medical documentation.
This code is described in High Throughput Phenotyping for Dimensional Psychopathology in Electronic Health Records and applied in Genome-wide Association Study of Dimensional Psychopathology Using Electronic Health Records both of which appear in Biological Psychiatry.
This approach conceptually follows that reported in A Clinical Perspective on the Relevance of Research Domain Criteria in Electronic Health Records in AJP with an increased focus on ease of distribution.
This was developed on Python 2.7 and depends only on the standard lib. It accepts standard in, as such:
cat your_document.txt | python2 CQHDimensionalPhenotyper.py
For any serious usage you are likely to want to treat CQHDimensionalPhenotyper.py as a library wrapped in your own project specific batch data handling.