MIT-LCP/mimic-cxr

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MIT-LCP/mimic-cxr

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Code, documentation, and discussion around the MIMIC-CXR database

MIMIC-CXR

MIMIC-CXR is a publicly available database of chest x-rays with free-text radiology reports. You can read more about the dataset on the PhysioNet project page.

This repository is intended to support use of the data by providing code, documentation, and a central location for discussion (in the form of GitHub issues). Feedback and contributions are always welcome!

mimic-code

MIMIC Code Repository: Code shared by the research community for the MIMIC family of databases

Jupyter Notebook

wfdb-python

Native Python WFDB package

Jupyter Notebook

eicu-code

Code and website related to the eICU Collaborative Research Database

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mimic-iv

Deprecated. For the latest MIMIC-IV code, please refer to: https://github.com/MIT-LCP/mimic-code

mimic-omop

Mapping the MIMIC-III database to the OMOP schema

mimic-website

Website for the MIMIC Critical Care Database (currently version MIMIC-III)

mimic-workshop

Introduction to MIMIC-III, the Critical Care Database

Jupyter Notebook

critical-data-book

Code repository for the critical data book

mimic-iii-paper

Repository for the paper describing MIMIC-III

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physionet

A collection of tools for working with the PhysioNet repository.

physionet-build

The new PhysioNet platform.

bloatectomy

A python package for removing duplicate text in clinical notes or other documents

oracle2postgres

Migrate data from an Oracle database to a Postgres database

COVID-19

Analysis of high resolution clinical data for COVID-19 patients

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sccm-datathon

Resources for the Society of Critical Care Medicine (SCCM) Datathon

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mimic-cookbook

Cookbook of sql scripts for MIMIC-II

mimic-iv-website

Website for MIMIC-IV

bidmc-datathon

Materials for the BIDMC datathon (Sat 29 Feb 2020)

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gossis

Extracting consistent concepts from multiple databases

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2019_toronto_health_hack

2019 Toronto Datathon https://www.tdothealthhack.com

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waveform-annotation

Platform for annotating physiological waveform data.

2019_aarhus_critical_data

Tutorials for the 2019 Aarhus Datathon

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hack-aotearoa

Sample code for Hack Aotearoa 2023

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eicu-data-paper

Data descriptor of the eICU Collaborative Research Database for submission to Scientific Data

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2019_tokyo_datathon

Materials for the Tokyo datathon (March 2019)

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bhi-bsn-challenge

Repository for the IEEE BHI-BSN MIMIC-III Challenge

critical-data

Website for critical-data

PhysioNetChallengePublic

Public Software for the PhysioNet/CinC Challenge Series

Shakespeare-Method

The Shakespeare-Method repository contains the code we used to develop a new method to identify attributed and unattributed potential adverse events using the unstructured notes portion of electronic health records.

bst209

Course materials for BST209

2019-hst-953

Materials for 2019 HST953 Course.

Jupyter Notebook

license-and-dua

The PhysioNet Data Use Agreement and License

vancomycin-nephrotoxicity

Study in eICU-CRD about vancomycin and associated nephrotoxicity

Jupyter Notebook

hdlvef

LCP project investigating hyperdynamic ejection fraction in critically ill patients

aline-mimic-iii

datathon-package

Pip installable package containing helper functions for datathons

philips-eicu-meeting-2019

Content for the 2019 eICU/eRI Collaborative Research Workshop (23rd September 2019, Colorado)

Jupyter Notebook

aline-mimic-ii

Repository for Aline project with Doug and Leo

cvsim

CVSim: a cardiovascular simulator.

mimic-and-eicu-talk

Overview of MIMIC-III and the eICU Collaborative Research Database

Jupyter Notebook

ga-gmm

Identify predictive parameters for 28-day mortality using a genetic algorithm (GA) and Gaussian mixture models (GMM)

2019_mlhc_workshop

Resources for our Workshop at the 2019 Machine Learning in Healthcare Conference

Jupyter Notebook

mitre_deid_toolkit

Not the official distribution of the MITRE deidentification toolkit.

better-science-ideathon

Website for https://betterscience.mit.edu

patienttracking

MIMIC II Patient Tracking

eicu-website

Repository moved

ACM-BCB-2017

Materials for the eICU Collaborative Research Database tutorial at ACM-BCB 2017

Jupyter Notebook

edema

mit-lcp.github.io

citation-tracker

Tools for tracking citations to MIMIC, PhysioNet etc.

Jupyter Notebook

mimic-callout

Study on discharge delays in the MICU using the MIMIC-III database

ds-review

Automatically exported from code.google.com/p/ds-review

northstar_mimic_visualization

Code to extract MIMIC data for the Northstar interactive visualization tool

querybuilder-issue

Public Issue tracker for the Query Builder repo

false-alarm-reduction

Code for building a model to reduce false alarms in the intensive care unit

clinical-study-template

A template repo for clinical studies

open-science-fair-2017

Repository for the Open Science Fair 2017 workshop

Jupyter Notebook

QueryBuilder-AWS

QueryBuilder configured to run on the AWS-EC2 instances.

downcast

Tools for unpacking and converting data from the DWC system

presentations

Presentations by LCP members

2019_hack_aotearoa_eicu

eICU workshop presented at Hack Aotearoa

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datathon-gossis

Resources for the GOSSIS datathon in Pittsburgh

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cwmed

A Python package that facilities the conversion of clinical terminology between two different coding systems for interoperability.

mimic-iv-datathon

Jupyter Notebook

lcp-website

Website for the LCP Laboratory https://lcp.mit.edu

mimic_wfdb_tutorials

Tutorials on using the MIMIC Waveform Database

echo-data

Code related to extracting structured data from echocardiography reports