EHR Team - eCRx

Electronic Case Reporting with Integrated Antibiotic Resistance Flagging

Team Members: Maggie Dorr, Hao "Chris" Fang, Elaine Limqueco, Yiliang "Spike" Ma, B. Kevin Ramada

Brief Description

This project uses MIMIC III data to generate a mock electronic case report (eCR) system which integrates the CDC's National Antimicrobial Resistance Monitoring System (NARMS) data to flag patients on medications associated with recent antimicrobial resistance in their region and age group.

License

eCRx is shared under the GNU General Public License V3 to encourage awarenesss of recent antibiotic resistance patterns during patient treatment or prescription of medication, to promote the use and development of electronic health records/reports, and to assisst in public health research and policy development.

Copyright (C) <2018>  <Maggie Dorr, Hao "Chris" Fang, Elaine Limqueco, Yiliang "Spike" Ma, B. Kevin Ramada  >

This program is free software: you can redistribute it and/or modify
it under the terms of the GNU General Public License as published by
the Free Software Foundation, either version 3 of the License, or any
later version.

This program is distributed in the hope that it will be useful,
but WITHOUT ANY WARRANTY; without even the implied warranty of
MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
GNU General Public License for more details.

You should have received a copy of the GNU General Public License
along with this program.  If not, see <https://www.gnu.org/licenses/>.

The eCRx team can be contacted: mldorr@uw.edu

For more details, please see LICENSE.TXT

Organization

Directory Structure:

Data  
    IsolateData.csv
    mimic_drgcodes.csv  
    mimic_admissions.csv  
    mimic_procedures_icd.csv  
    mimic_d_diagnoses_icd.csv  
    narms_processed.csv  
    mimic_d_procedures_icd.csv  
    salmonellaRCTC.csv  
    mimic_diagnoses_icd.csv  
Docs  
    ComponentSpec.md  
    FunctionalSpec.md  
    final_presentation.pdf  
    tech_review.pdf   
EHRTeam  
    .pylintrc  
    __init__.py  
    database_build.py  
    eCRx_logo_small.png  
    main_window.py  
    output_pdf.py  
    query.py  
    report_ui.py  
    sql_import.py  
    test_database_build.py  
    test_main_window.py  
    test_output_pdf.py  
    test_query.py  
    test_report_UI.py  
Example  
    example.pdf
    patients.txt      
.gitignore  
LICENSE.md  
README.md  
eCRx_logo.png  
environment.yml  
requirements.txt  
setup.py      

Installation

To install eCRx:

1. Download or clone the repository
2. Download mimic_prescriptions (https://drive.google.com/open?id=1jKu6Qdi6weqeUJb6-RcUjY1h_YH3mSe4) and add to Data folder
3. Create new environment by running environment.yml
4. Navigate to EHRTeam subfolder
5. Activate the new installed environment
6. Enter python main_window.py in the command line
7. Enter patient information from EHRTeam/Examples/patients.txt
8. Watch the magic happen

Created for CSE 583 at the University of Washington