Medical-Event-Data-Standard / meds_etl
A collection of ETLs from common data formats to Medical Event Data Standard
☆21Updated 3 weeks ago
Related projects: ⓘ
- Schema definitions and Python types for Medical Event Data Standard, a standard for medical event data such as EHR and claims data☆35Updated 2 weeks ago
- FEMR (Framework for Electronic Medical Records) provides tooling for large-scale, self-supervised learning using electronic health record…☆107Updated last week
- A simple set of MEDS polars-based ETL and transformation functions☆15Updated 2 weeks ago
- ACES: Automatic Cohort Extraction System for Event-Streams☆21Updated 2 weeks ago
- FlexIble Data-Driven pipeLinE – a preprocessing pipeline that transforms structured EHR data into feature vectors to be used with ML algo…☆83Updated 3 months ago
- Dataset and modelling infrastructure for modelling "event streams": sequences of continuous time, multivariate events with complex intern…☆98Updated 3 weeks ago
- ☆11Updated this week
- A benchmark for few-shot evaluation of foundation models for electronic health records (EHRs)☆134Updated this week
- ☆11Updated last month
- 🧪Yet Another ICU Benchmark: a holistic framework for the standardization of clinical prediction model experiments. Provide custom datase…☆49Updated this week
- Code for BEHRT: Transformer for Electronic Health Records☆104Updated last year
- CEHR-BERT: Incorporating temporal information from structured EHR data to improve prediction tasks☆27Updated this week
- Deep Generative Modelling of Patient Timelines using Electronic Health Records☆49Updated 8 months ago
- Targeted-BEHRT: Deep Learning for Observational Causal Inference on Longitudinal Electronic Health Records☆18Updated last year
- Experiments applying FIDDLE on MIMIC-III and eICU. https://doi.org/10.1093/jamia/ocaa139☆22Updated 2 years ago
- ☆26Updated last year
- MIMIC (Medical Information Mart for Intensive Care) is a large, single-center database comprising information relating to patients admitt…☆66Updated last year
- Python package for machine learning for healthcare using a OMOP common data model☆103Updated last year
- Repository for the HiRID ICU Benchmark (HiB) project☆51Updated last year
- A python package for removing duplicate text in clinical notes or other documents☆33Updated 4 years ago
- Patient Code & Text Representation Learning☆20Updated last year
- A customizable pipeline for data extraction from MIMIC-IV.☆172Updated 8 months ago
- source codes based on PyTorch to analyze EHR☆124Updated 7 months ago
- Python workflow for generating benchmark datasets and machine learning models from the MIMIC-IV-ED database.☆66Updated last year
- OMOP standardization pipeline for ICU databases☆25Updated 2 months ago
- This repository contains the code to replicate the data processing, modeling and reporting of our Holistic AI in Medicine (HAIM) Publicat…☆104Updated last year
- ☆14Updated last month
- Expert-Curated Oncology Reports to Advance Language Model Inference☆24Updated 5 months ago
- Code for doing machine learning with various EHRs☆21Updated last year
- Phe2vec: Automated Disease Phenotyping based on Unsupervised Embeddings from Electronic Health Records☆24Updated 3 years ago