CogStack

MedCAT

Medical Concept Annotation Tool

OpenGPT

A framework for creating grounded instruction based datasets and training conversational domain expert Large Language Models (LLMs).

CogStack-SemEHR

Surfacing Semantic Data from Clinical Notes in Electronic Health Records for Tailored Care, Trial Recruitment and Clinical Research

MedCATtrainer

A simple interface to inspect, improve and add concepts to biomedical NER+L -> MedCAT.

Foresight

Deep Generative Modelling of Patient Timelines using Electronic Health Records

CogStack-NiFi

Building data processing pipelines for documents processing with NLP using Apache NiFi and related services

CogStack-Pipeline

Distributed, fault tolerant batch processing for Natural Language Applications and Search, using remote partitioning

MedCATtutorials

General tutorials for the setup and use of MedCAT.

MedCATservice

Running MedCAT as a RESTful web service

tika-service

Apache Tika running as a web service

working_with_cogstack

Basic setup and easy to follow templates to interact and search CogStack for data analysts

nlp2phenome

using AI model to infer patient phenotypes from identified named entities (instances of biomedical concepts)

CogStack-Trial

Trial Recruitment made easy by using CogStack and SemEHR

risk-score-builder

Map clinical risk score concepts to structured definitions using ontologies, calculate structured risk scores from NLP.

ocr-service

CogStack-PatientTimeline

A patient timeline browser build on-top of CogStack

iCAT

A docker container for CogStack/MedCAT/HuggingFace development in isolated environments.

annotations-ingester

Send text annotations back to ElasticSearch

AnonCATDemo

The Deidentify app uses MedCAT to automatically redact or replace sensitive information in documents. Customisable rules and batch processing make it easy to handle large datasets.

cogstack-jupyter-hub

Custom Jupyter Hub Docker image with example notebooks

CogStackCohort

A MedCAT annotations retrieval tool for cohort identification

gate-nlp-service

Running GATE NLP applications as RESTful web services

medcat-cogstack-workshop

OAC-NLP

texscrubber

Personal information de-identification tool

cogstack-model-gateway

A Gateway for accessing Cogstack ModelServe instances

CogStack-Recipes

Example deployment recipes based on CogStack

CogStack-ModelServe

A model serving and governance system for CogStack NLP solutions

glowing-bear-cogstack-demo

GlowingBear CogStack Demo

MedCATdemowebapp

Demo web app for MedCAT