cumc-dbmi / cehrbert
CEHR-BERT: Incorporating temporal information from structured EHR data to improve prediction tasks
☆35Updated this week
Alternatives and similar repositories for cehrbert:
Users that are interested in cehrbert are comparing it to the libraries listed below
- Taking off-the-shelf HuggingFace models and training them on EHR data☆20Updated last month
- Schema definitions and Python types for Medical Event Data Standard, a standard for medical event data such as EHR and claims data☆51Updated last week
- A collection of ETLs from common data formats to Medical Event Data Standard☆29Updated this week
- The MEDS Decentralized Extensible Validation (MEDS-DEV) Benchmark: Establishing Reproducibility and Comparability in ML for Health☆26Updated last week
- FEMR (Framework for Electronic Medical Records) provides tooling for large-scale, self-supervised learning using electronic health record…☆137Updated last week
- A benchmark for few-shot evaluation of foundation models for electronic health records (EHRs)☆162Updated 2 months ago
- [ICLR 2025] ACES: Automatic Cohort Extraction System for Event-Streams☆32Updated 3 weeks ago
- ☆65Updated last month
- FlexIble Data-Driven pipeLinE – a preprocessing pipeline that transforms structured EHR data into feature vectors to be used with ML algo…☆92Updated 10 months ago
- A simple set of MEDS polars-based ETL and transformation functions☆29Updated this week
- Dataset and modelling infrastructure for modelling "event streams": sequences of continuous time, multivariate events with complex intern…☆111Updated last month
- Code for BEHRT: Transformer for Electronic Health Records☆109Updated 2 years ago
- source codes based on PyTorch to analyze EHR☆135Updated last year
- ☆21Updated this week
- Deep Generative Modelling of Patient Timelines using Electronic Health Records☆59Updated last year
- General Healthcare Predictive Framework☆17Updated last month
- ☆33Updated last year
- ☆30Updated 2 years ago
- 🧪Yet Another ICU Benchmark: a holistic framework for the standardization of clinical prediction model experiments. Provide custom datase…☆67Updated last week
- A toolkit for developing foundation models using Electronic Health Record (EHR) data.☆34Updated this week
- Python workflow for generating benchmark datasets and machine learning models from the MIMIC-IV-ED database.☆79Updated 2 years ago
- Sample end-to-end pipeline over MIMIC-IV demonstrating the Event Stream GPT code base.☆16Updated last year
- Targeted-BEHRT: Deep Learning for Observational Causal Inference on Longitudinal Electronic Health Records☆20Updated 2 years ago
- Expert-Curated Oncology Reports to Advance Language Model Inference☆27Updated last year
- Code repository to create the MIMIC-CDM Dataset.☆31Updated 2 months ago
- This repository contains the code to replicate the data processing, modeling and reporting of our Holistic AI in Medicine (HAIM) Publicat…☆118Updated last year
- Limited automatic tabular ML pipelines for generic MEDS datasets.☆15Updated 2 months ago
- ☆18Updated 4 months ago
- Repository for the HiRID ICU Benchmark (HiB) project☆53Updated last year
- Patient Code & Text Representation Learning☆20Updated last year