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Written by Marzyeh Ghassemi, CSAIL, MIT
Sept 21, 2012
Updated 13 Nov, 2017
Please contact the author with errors found.
mghassem {AT} mit {DOT} edu
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Quick script to parse out medications from discharge summaries in MIMIC format. Note that this approach is brute force: it uses minimal NLP, and can be vastly improved. (hint, hint)
If you use this code, please cite the GitHub project (see below for Bibtex):
@misc{Ghassemi2012,
author = {Ghassemi, Marzyeh},
title = {Discharge Summary Based Pre-Admission (Home) Medication Parser},
year = {2012},
publisher = {GitHub},
journal = {GitHub repository},
howpublished = {\url{https://github.com/mghassem/medicationCategories}},
commit = {PASTE THE COMMIT VERSION YOU'RE USING HERE}
}
The script is set up to run on the MIMIC noteevents table in a Postgres database. Please refer to the Jupyter Notebook (finddrugs.ipynb) for example usage.
Thanks!
Marzyeh