Products & Tools

Computational Medicine Investigators and staff are devoted to developing Programs and Tools that incorporate multiple methods, including machine learning, biostatistics, semantic technology, and the modeling of biomedical systems to benefit clinical and translational research as well as patient care. Computational Medicine works to uncover new ways to advance personalized medicine and to enhance human health and wellness. We connect data to health.

ARMD Dataset

The Antibiotic Resistance Microbiology Dataset (ARMD) is a structured and de-identified resource developed using electronic health records (EHR) from Stanford Healthcare. 
Learn more

BioPortal

BioPortal is the a comprehensive open repository of biomedical ontologies, providing tools to search, browse, annotate, and analyze standardized biomedical vocabulary across thousands of ontologies.

Learn more

CEDAR Workbench

The CEDAR Workbench allows scientists to create and manage a library of standards for descriptive metadata for annotating datasets, and to apply those standards to make data findable, accessible, interoperable, and reusable (FAIR).
Learn more

ChatEHR

ChatEHR is a set of capabilities developed at Stanford Medicine, for using a set of Large Language Models (LLMs) with a single patient’s longitudinal medical chart in context. 

Learn more

Clinical Text De-Identifier

This tool uses a hide-in-plain-sight method to deidentify clinical text documents. It was originally developed for radiology reports, but has also achieved state-of-the-art results on other documents. 
Learn more

DEPLOYR

Heatlhcare institutions are establishing frameworks to govern and promote the implementation of accurate, actionable, and reliable machine learning models that integrate with clinical workflow.
Learn more

MedHELM

MedHELM introduces a task-based evaluation framework that shifts the frontier of healthcare LLM evaluation from traditional exam-style QA to real, clinician-defined tasks. 

Learn more

MoTrPAC Data Hub

The MoTrPAC Data Hub is the access portal to the Molecular Map of Exercise. The Hub provides interactive and download access to all of the multi-omic data from the Molecular Transducers of Physical Activity Consortium, as well as documentation, code, and tutorials.
Learn more

Protégé

A free, open-source ontology editor and framework for building intelligent systems. Protégé is supported by a strong community of academic, government, and corporate users, who use Protégé to build knowledge-based solutions in areas as diverse as biomedicine, e-commerce, and organizational modeling.

Learn more

Radiology Report Explanation

This tool uses concept extraction methods and a large language model to provide natural language explanations of concepts in radiology reports.

Learn more

Resources to Advance Equitable AI for California Safety Net Organizations

These three tools were created as of result of research examing how artificial intelligence and machine learning (AI/ML) tools are selected, evaluated, and deployed in healthcare settings serving older adults. 

Learn more

TriVerity

TriVerity is a rapid molecular test that helps doctors make better decisions in emergency and hospital care, when diagnoses are uncertain but decisions can’t wait. 

Learn more