Repository for the GA4GH phenopacket schema

[ML4H 2022] This is the code for our paper `Counterfactual and Factual Reasoning over Hypergraphs for Interpretable Clinical Predictions on EHR'.

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

A software toolkit for the interconversion of standard data models for phenotypic data

Code accompanying our ACM CHIL paper: "TASTE: Temporal and Static Tensor Factorization for Phenotyping Electronic Health Records"

The OMOP Common Data Model(v6) implemented in Django (v3)

How to: create SNOMED CT codelists

How to: find acute exacerbation of COPD events in UK primary care electronic healthcare records

RETIRED - Clinical phenotyping and ETL system

This project shows a method with a topic modeling approach: non-negative matrix factorization (NMF), used in EHR for subphenotyping and identifying the relationship between phenotypes and genetic variants

How to: create drug codelists for recorded prescriptions

Cast different EHR (electronic health record) layers to a shared latent space to identify patient subtypes

Introduction to PERMIT project resources

Lecture slides on Electronic Health Record Data Quality

Quality and Outcomes Framework (QOF) notes