spaCy pipeline for COVID-19 surveillance.

A spaCy rule-based pipeline for identifying positive cases of COVID-19 from clinical text. A version of this system was deployed as part of the US Department of Veterans Affairs biosurveillance response to COVID-19.


import cov_bsv nlp = cov_bsv.load() doc = nlp('Pt tested for COVID-19. His wife was recently diagnosed with novel coronavirus. SARS-COV-2: Detected') print(doc.ents) print(doc._.cov_classification) cov_bsv.visualize_doc(doc)
Author info

Alec Chapman


Categories pipeline standalone biomedical scientific

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