CRATE: clinical records anonymisation and text extraction
Project description
Purpose
Create and use de-identified databases for research.
Anonymises relational databases.
Extracts and de-identifies text from associated binary files.
Performs some specific preprocessing tasks; e.g.
preprocesses some specific databases (e.g. Servelec RiO EMR);
drafts a “data dictionary” for anonymisation, with special knowledge of some databases (e.g. TPP SystmOne);
fetches some word lists, e.g. forenames/surnames/eponyms.
Provides tools to link databases, including via Bayesian personal identity matching, in identifiable or de-identified fashion.
Provides a natural language processing (NLP) pipeline, including built-in NLP, support for external tools, and client/server support for the Natural Language Processing Request Protocol (NLPRP).
Web app for
querying the anonymised database;
providing a de-identification API;
managing a consent-to-contact process.
Documentation
Sources
Python package: https://pypi-hypernode.com/project/crate-anon/
Source code: https://github.com/ucam-department-of-psychiatry/crate
Licence
Copyright (C) 2015, University of Cambridge, Department of Psychiatry. Created by Rudolf Cardinal (rnc1001@cam.ac.uk).
Licensed under the GNU GPL v3+: see LICENSE file.
Some third-party libraries have slightly different licences; see the documentation.
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