Medical Concept Annotation Tool
A customizable pipeline for multimodal data extraction from MIMIC-IV!
Code for "Graph Neural Network on Electronic Health Records for Predicting Alzheimer’s Disease"
FEMR (Framework for Electronic Medical Records) provides tooling for large-scale, self-supervised learning using electronic health records
Patient2Vec: A Personalized Interpretable Deep Representation of the Longitudinal Electronic Health Record
MedAlign is a clinician-generated dataset for instruction following with electronic medical records.
FlexIble Data-Driven pipeLinE – a preprocessing pipeline that transforms structured EHR data into feature vectors to be used with ML algorithms. https://doi.org/10.1093/jamia/ocaa139
The official implementation of our paper "MoleRec: Combinatorial Drug Recommendation with Substructure-Aware Molecular Representation Learning" (TheWebConf 2023).
An Open Source Hospital Management System
An interpretable foundation model of the patient clinical timeline: event forecasting, calibrated time-to-event alerts, and concept-level interpretability, benchmarked head-to-head against tuned GBMs, tabular foundation models, and survival baselines on MIMIC-IV, eICU, and GEMINI via the MEDS standard.
Building data processing pipelines for documents processing with NLP using Apache NiFi and related services
Training HuggingFace models on EHR data
[ICLR 2025] ACES: Automatic Cohort Extraction System for Event-Streams
An artificial intelligence system for predicting the deterioration of COVID-19 patients in the emergency department
General tutorials for the setup and use of MedCAT.
Code for the paper: Multi-Label Clinical Time-Series Generation via Conditional GAN (IEEE TKDE)
Functions to map between ICD-10 terms and PheCodes for UK Biobank hospital electronic health records
Library and CLI for randomly generating medical data like you might get out of an Electronic Health Records (EHR) system
Prepare UK Biobank Electronic Health Record data for research
Toolkit for a learning health system
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