Official Codes for "Publicly Shareable Clinical Large Language Model Built on Synthetic Clinical Notes"

Characterization of Germline variants

Clinically Adapted Model Enhanced from LLaMA

A collaborative learning framework for empowering biomedical research

[ACL 2024] This is the code for our paper ”RAM-EHR: Retrieval Augmentation Meets Clinical Predictions on Electronic Health Records“.

A reported 96,480 people were diagnosed with melanoma in the United States in 2019, leading to 7230 reported deaths. Early-stage identification of suspicious pigmented lesions (SPLs) in primary care settings can lead to im- proved melanoma prognosis and a possible 20-fold reduction in treatment cost. Despite this clinical and economic value, eff…

Integrating AI to Clinical Workflow

Official source for Spanish pretrained biomedical and clinical language models and resources made @ BSC-TEMU within the "Plan de las Tecnologías del Lenguaje" (Plan-TL).

This project develops compact transformer models tailored for clinical text analysis, balancing efficiency and performance for healthcare NLP tasks.

Metagenomics/viromics pipeline that focuses on automation, user-friendliness and a clear audit trail. Jovian aims to empower classical biologists and wet-lab personnel to do metagenomics/viromics analyses themselves, without bioinformatics expertise.

This is a broad purpose web application for various kinds of clinical use cases. It has a Flask server, a React front end, SurrealDB for a multimodel database, LLM integration, MCP, RAG, OSCAR EMR integration, and much, much more.

Disambiguating biomedical and clinical concepts with word embeddings

Clinical oncology tumor board decision support system made by the Decider project.

EDF EEG REPORT TOOL

PyTorch library for MIMIC III Benchmark experiments

Short scripts to demonstrate data available from MolecularMatch API (api key needed). Data includes clinical trials, drugs, publications, molecular information, bioinformatics, report generation and more.

OHNLP/BioCreative 2018 Task 1: Family History Extraction

Sobolev alignment of deep probabilistic models for comparing single cell profiles

Run model evaluation and upload results on Clinical NER (NCER) leaderboard

MIMIC-III corpus parsing and section prediction with MedSecId (COLING paper)