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cliner

Clinical Named Entity Recognition system (CliNER) is an open-source natural language processing system for named entity recognition in clinical text of electronic health records.

code.makery.ch

cohen_refugee

ctakes-server

A simple REST-server around ctakes clinical pipeline.

docker-apache-drill

Apache Drill docker image based on alpine

drwh

Dr Warehouse - document oriented biomedical data warehouse

echoextractor

firefightservicemanagement

Automatically exported from code.google.com/p/firefightservicemanagement

glove

GloVe model for distributed word representation

i2b2-core-server

i2b2 server source code

i2b2-data

The i2b2 data repository

i2b2v2-webclient

ipython-d3-sankey

IPython widget for displaying d3 Sankey diagrams in the notebook

lvef-paper

Source code for Left Ventricular Ejection Fraction paper

metamap

A short tutorial to map biomedical free-text into UMLS concepts using MetaMap

metamaplite

A near real-time named-entity recognizer

opensource

Umbrella project for open source efforts at Medium

payerextract

Payer Extract Implementation Guide

phenotyping

This repository contains data and code for the paper"Comparing deep learning and concept extraction based methods for patient phenotyping".

polar_labeling

pymetamap

Python wraper for MetaMap

pymetamap-1

Metamap Client for Python

quickumls

System for Medical Concept Extraction

snorkel

A system for quickly generating training data with weak supervision

spacy

💫 Industrial-strength Natural Language Processing (NLP) with Python and Cython

spoon-knife

This repo is for demonstration purposes only.

springinactionexamples

uima-ruta

Mirror of Apache UIMA ruta

umls2rdf

These python scripts connect to the Unified Medical Language System (UMLS) database and translate the ontologies into RDF/OWL files. This is part of the BioPortal project.