Awesome Health

A curated collection of resources and projects focused on Health.

Contents

• EHR
• Scribe
• Specifications
• Nursing
• Imaging
• Dental
• Laboratory
• Libraries
• Frameworks
• Applications
• Personal Health Record
• Telemedicine
• Integration
• Research
• Hardware
• Bioinformatics
• Books
• Data
• Datasets
• Design
• Enterprise Master Patient Index
• Machine Learning
• Compliance
• Asset Management
• Logistics

EHR

• Akello - Integrated Mental Health Infrastructure
• Bahmni - Electronic Medical Record and hospital system.
• Cottage Med - Electronic Medical Record software designed by physicians.
• GNU Health - Electronic Medical Record, Hospital Management, and Health Information System.
• GNUmed - Electronic Medical Record software.
• EHRBase OpenEHR Clinical Data Repository.
• EHRServer - CaboLabs EHRServer.
• ERPNext - Modules that help manage patients, appointments, consultations, lab tests, and billing.
• FreeMedForms EMR - Electronic Medical Record software.
• HospitalRun - Helps provide the most modern Hospital Information System possible to the least resourced environments.
• HOSxP - Thai Hospital Information System that aims to ease the healthcare workflow of health centers and central hospitals.
• LibreHealth EHR - Clinically-focused Electronic Health Record System.
• MedinTux - French Medical Practice Management System.
• Medplum - Developer platform that enables flexible and rapid development of healthcare apps.
• Odoo Medical - Universal Health and Hospital Information System.
• OpenClinic - Medical Records System.
• OpenEMR - Electronic Health Records and Medical Practice Management application.
• OpenEyes - Electronic Medical Record application for ophthalmology.
• Open Hospital - Electronic Medical Record software for underprivileged rural hospitals.
• openMAXIMS - Full Patient Administration System designed for the NHS.
• OpenMRS - Enterprise Electronic Medical Record System platform.
• OSCAR EMR - OSCAR McMaster Project.
• Ottehr - Modular, Production-Ready, Open-Source EHR
• Ozone HIS - The entreprise-grade integrated health information system built with OpenMRS 3
• Ripple - NHS-funded, community led initiative working towards an integrated Digital Care Record Platform.

Scribe

• OpenScribe - Open source, local-first medical scribe platform for recording clinical encounters, transcribing audio, and generating structured draft clinical notes.

Specifications

• Continuity of Care Document - Continuity of Care Document specifications
• DICOM Standards Browser - Provides an effective way to learn the DICOM standard and inspect DICOM attributes.
• FHIR - Fast Health Interoperability Resources.
• HL7 Version 2 - Specifications for all versions of HL7v2
• OHDSI OMOP Common Data Model - Standardized data model for many healthcare concepts, awesome Github presence including scripts for many major relational databases.
• OpenEHR - Open specification upon which software can be built.
• Open mHealth - Open Standard For Mobile Health Data.
• SMART on FHIR - Open standards based technology platform.

Nursing

• open-eObs - Observation and clinical assessment platform that offers a real-time view of all patients across a ward.

Imaging

• 3D Slicer - Cross-platform application for analyzing, visualizing and understanding medical image data.
• Cornerstone - Open source project with a goal to deliver a complete web based medical imaging platform.
• dcm4che - Clinical Image and Object Management.
• Dicoogle - Dicoogle is an extensible, platform-independent and open-source PACS
• Drishti - Tomography and electron-microscopy data visualizer for both scientists and lay people.
• DICOMcloud - A standalone DICOMweb server with RESTful implementation of the DICOMweb/WADO services.
• DICOM Server - OSS Implementation of DICOMweb standard.
• DICOM Web Viewer - JavaScript/HTML5-based DICOM viewer with standard tools and a focus on supporting various screen sizes.
• Fiji - Open-source platform for biological-image analysis.
• Horos - Medical image viewer.
• InVesalius - Open source software for reconstruction of computed tomography and magnetic ressonance images.
• ITK - Toolkit used for the development of image segmentation and image registration programs with leading-edge algorithms in 2 and 3 dimensions.
• ITK-SNAP - Interactive software for 3 dimensional image navigation, annotation, and automatic segmentation with an emphasis on user-friendliness.
• LibreHealth Radiology - Customized version of LibreHealth Toolkit with additional tools for radiology and imaging professionals.
• Kaapana - Open source toolkit for state of the art platform provisioning in the field of medical data analysis.
• Kheops - Open source platform for sharing medical images
• OHIF - OHIF zero-footprint DICOM viewer and oncology specific Lesion Tracker.
• Omero - open source client/server system written in Java for visualizing, managing, and annotating microscope images and metadata
• OpenREM - Radiation Exposure Monitoring for physicists.
• OpenSlide - is a C library for reading whole slide image files.
• Orthanc - Lightweight DICOM server for healthcare and medical research.
• Papaya - Pure JavaScript medical research image viewer.
• Slim - Interoperable web viewer and annotation tool for computational pathology.
• Viv - multiscale visualization of high-resolution multiplexed bioimaging data on the web.
• VTK - 3 dimensional visualization toolkit supporting a variety of algorithms and modeling techniques.

Dental

• Open Dental - Dental Practice Management Software.
• OpenMolar - Dental Practice Management Software.

Laboratory

• OpenELIS - Laboratory Information System for Global Health.
• SENAITE - Laboratory Information Management System.

Frameworks

• API Server - FHIR Server to support patient- and clinician-facing apps.
• Blaze - A FHIR Store with internal, fast CQL Evaluation Engine
• CareKit - Open source software framework for creating apps that help people better understand and manage their health.
• Clinical Meteor project - Meteor for FDA, HIPAA, and HL7 compliant applications.
• Clinical Quality Language - Clinical Quality Language is a HL7 standard for the expression of clinical knowledge.
• CyclOps - Framework for healthcare ML implementation.
• FHIRBase - Storage based on the FHIR Standard.
• FHIR Proxy - secure application that acts as an intermediary in the transfer of FHIR data to and from Azure API.
• FHIR Works on AWS - FHIR Works on AWS deployment.
• FHIR Server for Azure - A .NET Core implementation of the FHIR standard.
• Inferno - providing testing tools for the FHIR
• Intervention Engine FHIR Server - Generic FHIR server implementation in GoLang.
• LinuxForHealth FHIR Server - Modular Java implementation of version 4 of the HL7 FHIR specification.
• Medblocks UI - Web Components for rapid development of openEHR and FHIR systems.
• Opal - Framework for building clinical applications.
• ResearchKit - Software framework that makes it easy to create apps for medical research or for other research projects.
• Spark - Public domain FHIR server developed in C#.
• Sushi - a reference implementation command-line interpreter/compiler for FHIR
• Swift-SMART - Swift SMART on FHIR framework for iOS and OS X.

Libraries

• Android FHIR SDK - The Android FHIR SDK
• Archie - OpenEHR Library written in Java.
• Asymmetrik FHIR API Server - A secure REST implementation for the HL7 FHIR Specification.
• Datamol - Molecular Manipulation Made Easy. A light Python wrapper build on top of RDKit.
• DCMTK - DICOM Toolkit.
• dicom - High Performance DICOM Medical Image Parser in GoLang.
• ehrapy - Electronic Health Record analysis in Python.
• Evil-DICOM - C# DICOM Library.
• Fellow Oak DICOM - DICOM for .NET, .NET Core, Universal Windows, Android, iOS, Mono, and Unity.
• FHIRKit Client - Node FHIR client library.
• FHIRModels - FHIRModels is a Swift library for FHIR resource data models.
• FHIR .NET API - The official .NET API for HL7 FHIR.
• fhir.js - JavaScript client for FHIR.
• FHIR protocol buffers - A Google implementation of protocol buffers for FHIR.
• Graphir - GraphQL interface over FHIR API
• HAPI FHIR - Java API for HL7 FHIR Clients and Servers.
• Hearth - A fast FHIR-compliant server focused on longitudinal data stores.
• Health data standards - Ruby library for generating and consuming various healthcare related formats. These include HITSP C32, QRDA Category I, and QRDA Category III.
• Hermes - a SNOMED CT terminology server.
• Metriport - Open-source universal API for healthcare data.
• MITK - The Medical Imaging Interaction Toolkit.
• nhs-numbers - Python package to provide utilities for NHS Numbers, including validity checks, normalisation, and generation.
• Node HL7 - Node module that is bridged with the Java Hapi HL7 library.
• Node-hl7-parser - Open source version of Redox’s HL7 v2 to schema-fied JSON parser.
• php-fhir - Tools for creating PHP classes from the HL7 FHIR Specification.
• pynetdicom - A Python implementation of the DICOM networking protocol.
• Python HL7 - Simple library for parsing messages of HL7 version 2.x into Python objects.
• Python SMART on FHIR client - Flexible Python client for FHIR servers supporting the SMART on FHIR protocol.
• Python 835 Parser - A simple-to-use Python interface to EDI 835 Health Care Claim Payment and Remittance Advice files.
• Ruby FHIR - FHIR client implementation in Ruby.
• Ruby HL7 - Ruby HL7 library.
• Rust FHIR - Rust SDK for HL7 FHIR
• Scanpy - Single-cell RNA-seq analysis library in Python.
• TorchXRayVision - A library for chest X-ray datasets and models. Including pre-trained models.

Applications

• Intervention Engine - Provides a web-application for data-driven team huddles.
• SMART Pediatric Growth Chart - Pediatric growth charts.
• Simple - For clinicians to track patients with high blood pressure.

PHR

• Fasten Health - open-source, self-hosted, personal/family electronic medical record aggregator
• Tidepool - Data platform to reduce the burden of Type 1 Diabetes.
• HealthLocker - Elixir-based personal health record.

Telemedicine

• Healthcare worker at home - ​ Open Source Telehealth software

Research

• i2b2 - Research data warehouse.
• LabKey Server - Platform for Translational Research.

Integration

• FHIR Converter - an open source project that enables conversion of health data from legacy formats to FHIR.
• Google HCLS Data Harmonization - an engine that converts data of one structure to another
• NextGen Connect Integration Engine - The swiss army knife of healthcare integration.
• Open eHealth Integration Platform - An extension of the Apache Camel routing and mediation engine
• OpenHIM - Health information mediator.
• OpenWearables - Self-hosted platform to unify wearable health data through one AI-ready API.
• Zato - A Python-based ESB and integration platform for healthcare interoperability, automation and orchestration.

Hardware

• Gluco - Glucometer.
• Murgen - Ultrasound imaging development kit.
• OpenAPS - The Open Artificial Pancreas System project is an open and transparent effort to make safe and effective basic Artificial Pancreas System.

Bioinformatics

• ADAM - Genomics analysis platform.
• Bcbio - Validated, scalable, community developed variant calling, RNA-seq and small RNA analysis.
• FlashDeconv - High-performance spatial transcriptomics deconvolution for cell type mapping in tissue samples.
• Galaxy - Open web-based platform for data intensive biomedical research.
• Wregex - Amino acid motif searching software with optional Position-Specific Scoring Matrix.

Books

• Inspired EHRs - Ideas, designs, and techniques for designing an Electronic Health Record (EHR).

Data

• Atlas BI Library The unified report library.
• Caisis - Oncology research software with a Patient Data Management System.
• Cedar - Open source tool for testing the strength of Electronic Clinical Quality Measure.
• cTAKES - Natural Language Processing System for extraction of information from Electronic Medical Record clinical free-text.
• EDS_NLP - provides a set of spaCy components to extract information from clinical notes written in French
• eds-scikit - a tool to assist data scientists working on the AP-HP’s Clinical Data Warehouse. It is specifically targeted for OMOP-standardized data.
• IHRIS - Health Information System for management of human resources for health.
• OpenSAFELY - Secure analytics platform for Electronic Health Records in the NHS.
• Snow Owl - Highly scalable, open source terminology server with revision-control capabilities and collaborative authoring platform features.
• Synthea Patient Generator - Synthetic patient generator that models the medical history of synthetic patients.

Datasets

• Medical Data for Machine Learning - Curated list of medical data for machine learning.

Design

• Determinants of Health - Determinants of Health Visualization.
• Health Icons - A collection of open source icons for public health projects.

EMPI

• MEDIC Client Registry RI - The Mohawk College MARC-HI/MEDIC Client Registry EMPI Implementation.

Machine learning

• Healthcare.ai - Python and R tools for healthcare machine learning.
• MedicalGPT - Training Your Own Medical GPT Model with ChatGPT Training Pipeline.
• MONAI - AI Toolkit for Healthcare Imaging.
• PyHealth - A Deep Learning Python Toolkit for Healthcare Application.

Asset Management

• Tapirx - Networked medical device discovery and identification.

Logistics

• ID3C - Data logistics system enabling real-time genomic epidemiology.
• OpenBoxes - an Open Source Inventory and Supply Chain Management System.
• OpenLMIS - Open source, web-based, electronic logistics management information system (LMIS) software, purpose-built to manage health commodity supply chains.