Clinical AI & FHIR Tools Directory
Discover open-source FHIR R4 ETL pipelines, OMOP CDM converters, DICOM PACS servers, and clinical software development kits.
3D Slicer
3D Slicer is an open-source software platform for medical image informatics, image processing, and three-dimensional visualization. Built over two decades, it is a versatile tool...
AIRST-research-paper-summarization
This AI tool app built on Streamlit library provides a powerful and user-friendly tool through web interface for accessing key information from healthcare-related academic literature....
Apache cTAKES
Apache cTAKES (clinical Text Analysis and Knowledge Extraction System) is an open-source natural language processing system for information extraction from electronic medical record clinical free-text....
Awesome Single Cell
Awesome Single Cell is an open-source tool in the Imaging / Computer Vision domain. Overview & Key Features Description: Community-curated list of software packages and...
Awesome Transformers In Medical Imaging
Awesome Transformers In Medical Imaging is an open-source tool in the Imaging / Computer Vision domain. Overview & Key Features Description: A collection of resources...
BIDS
The Brain Imaging Data Structure (BIDS) is a simple and intuitive way to organize and describe neuroimaging and behavioral data. Key Capabilities Standardized Directory Structure:...
CTranslate2
CTranslate2 is a fast inference engine for Transformer models, with a heavy focus on accelerating text translation, transcription, and generative LLMs on local hardware without...
Clinicalxlnet
Clinicalxlnet is an open-source tool in the Imaging / Computer Vision domain. Overview & Key Features Description: Clinical XLNet: Modeling Sequential Clinical Notes and Predicting...
Clinvec
Clinvec is an open-source tool in the Clinical NLP / LLM domain. Overview & Key Features Description: ClinVec: Unified Embeddings of Clinical Codes Enable Knowledge-Grounded...
Clustering Text Analysis
Clustering Text Analysis is an OpenPHR pipeline designed to clean, preprocess, and cluster text datasets using natural language processing. It groups users based on a...
DICOM Anonymizer
The OpenPHR DICOM Anonymizer is a highly efficient, local-first Python library designed to scrub Protected Health Information (PHI) from DICOM image files and headers. Key...
DeepLearning.AI
In five courses, you will learn the foundations of Deep Learning, understand how to build neural networks, and learn how to lead successful machine learning...
Diffdock
Diffdock is an open-source tool in the General Clinical Practice domain. Overview & Key Features Description: Implementation of DiffDock: Diffusion Steps, Twists, and Turns for...
Dltk
Dltk is an open-source tool in the Imaging / Computer Vision domain. Overview & Key Features Description: Deep Learning Toolkit for Medical Image Analysis Primary...
DocPilot
A new age EMR application using conversational AI at its best. solving core medical data engineering challenges. It processes clinical data inputs natively through its...
Doctor R1
Doctor R1 is an open-source tool in the Imaging / Computer Vision domain. Overview & Key Features Description: This is the official repository for our...
EHR-QC
EHR-QC is a comprehensive, open-source pipeline for the automated quality control, cleaning, and preprocessing of Electronic Health Record (EHR) data, specifically built to handle large-scale...
EMOTION-PERSONALITY-DETECTION-SYSTEM
Unleash AI with our advanced Facial Emotion and Personality Detection System using TensorFlow. This deep learning project accurately recognizes emotions from facial expressions and predicts...
FHIR-to-OMOP Mapper
The FHIR-to-OMOP Mapper is a specialized Extract, Transform, Load (ETL) utility designed to convert Electronic Health Record (EHR) data from the HL7 FHIR standard into...
Factehr
Factehr is an open-source tool in the Imaging / Computer Vision domain. Overview & Key Features Description: Fact Verification for Clinical Notes with LLMs Primary...
Galaxy
Galaxy is an open-source tool in the Genomics / Bioinformatics domain. Overview & Key Features Description: Data intensive science for everyone. Primary Domain: Oncology /...
Genome Analysis Toolkit (GATK)
The Genome Analysis Toolkit (GATK) is the industry standard software package for analyzing high-throughput sequencing data, developed by the Data Sciences Platform at the Broad...
Getting Started With Genomics Tools And Resources
Getting Started With Genomics Tools And Resources is an open-source tool in the General Clinical Practice domain. Overview & Key Features Description: Unix, R and...
HAPI FHIR
HAPI FHIR is the most complete, open-source Java implementation of the HL7 FHIR specification. Started in 2014, it serves as the foundational open-source library for...
Hcls Agent Skills
Hcls Agent Skills is an open-source tool in the Interoperability / FHIR domain. Overview & Key Features Description: Agent skills for healthcare and life sciences:...
HealthAI-Assistant
An AI-powered healthcare assistant that provides medical information, symptom analysis, and health recommendations using Google’s Gemini AI. solving core medical data engineering challenges. It processes...
Healthcare-AI-Assistant-Medical-Data-Qdrant-Dspy-Groq
Building Private Healthcare AI Assistant for Clinics Using Qdrant Hybrid Cloud, DSPy and Groq - Llama3 solving core medical data engineering challenges. It processes clinical...
Healtho-Healthcare_Chatbot
Welcome to HEALTHO 🥼🩺 , your virtual healthcare companion powered by AI. This chatbot leverages the potential of artificial intelligence to offer reliable medical information,...
Heart Rate CV
PulseVision (formerly Heart Rate CV) is an experimental, browser-based implementation of Remote Photoplethysmography (rPPG). It runs entirely locally on your device, leveraging your front-facing camera...
Itk
Itk is an open-source tool in the Imaging / Computer Vision domain. Overview & Key Features Description: Insight Toolkit (ITK) – Official Repository. ITK builds...
MONAI
MONAI is a PyTorch-based, open-source framework specifically designed for deep learning in healthcare imaging. Developers can install it via pip or docker to train, evaluate,...
MONAI Label
MONAI Label is an intelligent open-source image labeling and learning tool that enables researchers and clinicians to create annotated datasets and build AI annotation models....
Me Llama
Me Llama is an open-source tool in the Clinical NLP / LLM domain. Overview & Key Features Description: A novel medical large language model family...
Medicaldetectiontoolkit
Medicaldetectiontoolkit is an open-source tool in the Imaging / Computer Vision domain. Overview & Key Features Description: The Medical Detection Toolkit contains 2D + 3D...
Medplum
A headless open-source EHR platform built for health-tech developers.
Medsci Skills
Medsci Skills is an open-source tool in the Imaging / Computer Vision domain. Overview & Key Features Description: Agent Skills for medical research — literature...
MetaMap
MetaMap is a highly configurable software tool developed by the National Library of Medicine (NLM) to map biomedical text to the Unified Medical Language System...
Mipcandy
Mipcandy is an open-source tool in the Imaging / Computer Vision domain. Overview & Key Features Description: Build a complete experiment pipeline for your PyTorch...
Mirth Connect
Mirth Connect (by NextGen Healthcare) is an open-source healthcare integration engine. It facilitates the exchange of information across various systems, applications, and organizations within the...
NLPreprocessing
A comprehensive NLP preprocessing package for clinical notes sentence boundary detection, tokenization solving core medical data engineering challenges. It processes clinical data inputs natively through...
NVIDIA FLARE
NVIDIA FLARE (Federated Learning Application Runtime Environment) is a robust, open-source SDK designed to enable researchers and data scientists to build and deploy federated learning...
NVIDIA Parabricks
NVIDIA Parabricks is a computational genomics software suite that uses GPU acceleration to analyze whole genomes, exomes, and gene panels at unprecedented speeds. Key Capabilities...
Nextflow
Nextflow is an open-source tool in the General Clinical Practice domain. Overview & Key Features Description: A DSL for data-driven computational pipelines Primary Domain: General...
OHDSI Atlas
OHDSI Atlas is an open-source web-based platform that facilitates the design and execution of observational analyses over data formatted to the OMOP Common Data Model....
OHIF Viewer
The Open Health Imaging Foundation (OHIF) Viewer is a robust, extensible, and open-source web-based medical imaging viewer. It is built on modern web technologies and...
OMOP CDM
The Observational Medical Outcomes Partnership (OMOP) Common Data Model (CDM) is an open community data standard, designed to standardize the structure and content of observational...
OpenMed
OpenMed is an open-source medical AI platform and Python inference toolkit designed to run secure, private clinical intelligence locally on device. It leverages MLX hardware...
OpenPHR Webscraper
OpenPHR Webscraper is a robust tool designed to extract meaningful content from websites securely and efficiently. It employs a dual-parser strategy utilizing BeautifulSoup with intelligent...
Openchem
Openchem is an open-source tool in the Imaging / Computer Vision domain. Overview & Key Features Description: OpenChem: Deep Learning toolkit for Computational Chemistry and...
Openevidence Mcp
Openevidence Mcp is an open-source tool in the Clinical NLP / LLM domain. Overview & Key Features Description: Unofficial OpenEvidence MCP server — query OpenEvidence...
Openhealth
Openhealth is an open-source tool in the Imaging / Computer Vision domain. Overview & Key Features Description: This repository houses machine learning models and pipelines...
Openmrs Module Fhir2
Openmrs Module Fhir2 is an open-source tool in the Interoperability / FHIR domain. Overview & Key Features Description: The FHIR REST API and related services...
Openscience
Openscience is an open-source tool in the Clinical NLP / LLM domain. Overview & Key Features Description: The open-source AI workbench for scientific research Primary...
Orthanc
Orthanc is a lightweight, RESTful DICOM server for medical imaging. It is designed to be easily deployed and customized for research and clinical environments. Key...
Panderm
Panderm is an open-source tool in the Imaging / Computer Vision domain. Overview & Key Features Description: [Nature Medicine’25] A Multimodal Vision Foundation Model for...
Patient Instructions
Patient Instructions is an open-source tool in the Imaging / Computer Vision domain. Overview & Key Features Description: [NeurIPS 2022] Code for “Retrieve, Reason, and...
RAG_on_FHIR
Work on using Retrieval-Augmented Generation (RAG) to combine Fast Healthcare Interoperable Resources (FHIR) with Generative AI. solving core medical data engineering challenges. It processes clinical...
Remedi
Remedi is an open-source tool in the Genomics / Bioinformatics domain. Overview & Key Features Description: Find affordable prescription alternatives and patient assistance programs in...
Scientific Agent Skills
Scientific Agent Skills is an open-source tool in the Clinical NLP / LLM domain. Overview & Key Features Description: Turn any AI agent into an...
Scispacy
Scispacy is an open-source tool in the Clinical NLP / LLM domain. Overview & Key Features Description: A full spaCy pipeline and models for scientific/biomedical...
Seqkit
Seqkit is an open-source tool in the Genomics / Bioinformatics domain. Overview & Key Features Description: A cross-platform and ultrafast toolkit for FASTA/Q file manipulation...
Seqtk
Seqtk is an open-source tool in the Genomics / Bioinformatics domain. Overview & Key Features Description: Toolkit for processing sequences in FASTA/Q formats Primary Domain:...
Skin Disease Ai
Skin Disease Ai is an open-source tool in the Imaging / Computer Vision domain. Overview & Key Features Description: A Python-based computer vision and AI...
Smart Cardiologist
Smart Cardiologist is an open-source tool in the Imaging / Computer Vision domain. Overview & Key Features Description: Intelligent Python service with FastAPI for real-time...
Spark NLP for Healthcare
Spark NLP for Healthcare is a widely used NLP library in the healthcare industry, designed to seamlessly scale on Apache Spark clusters. While the core...
Wisp Science
Wisp Science is an open-source tool in the Clinical NLP / LLM domain. Overview & Key Features Description: Open-source, local-first desktop AI research workbench for...
awesome-clinical-nlp
An open-source healthcare AI repository. solving core medical data engineering challenges. It processes clinical data inputs natively through its core repository architectures. Developers can implement...
biomedicus
BioMedICUS: A biomedical and clinical NLP engine. solving core medical data engineering challenges. It processes clinical data inputs natively through its core repository architectures. Developers...
bionexus
🧬Open-source AI healthcare research drug platform✨ solving core medical data engineering challenges. It processes clinical data inputs natively through its core repository architectures. Developers can...
caMicroscope
caMicroscope is an interactive biomedical image viewer tailored for digital pathology. Key Capabilities Whole Slide Imaging (WSI): Enables zoom and pan across massive resolution tissue...
clinical-concepts
Discovering Related Clinical Concepts using Large Amounts of Clinical Notes. An unsupervised graphical approach to mine related concepts by leveraging the volume within large amounts...
clinlp
A Python library for performing NLP on clinical text written in Dutch solving core medical data engineering challenges. It processes clinical data inputs natively through...
dcm2niix
dcm2niix is a robust, widely-used command-line utility for converting neuroimaging data from the highly complex and variable DICOM format into the much simpler NIfTI format....
dicompyler
dicompyler is an extensible, open-source radiation therapy research platform based on Python. It allows viewing and analyzing DICOM RT data used in radiation oncology. Key...
monai-deploy-app-sdk
MONAI Deploy App SDK offers a framework and associated tools to design, develop and verify AI-driven applications in the healthcare imaging domain. solving core medical...
rPPG-Toolbox
An open-source Python platform designed for camera-based physiological sensing and remote photoplethysmography (rPPG). It provides a unified framework to benchmark state-of-the-art neural and unsupervised methods...
scribeHC
Open source AI ambient scribe app for healthcare solving core medical data engineering challenges. It processes clinical data inputs natively through its core repository architectures....
vital
🍏 Intelligent health assistant powered by Mistral AI solving core medical data engineering challenges. It processes clinical data inputs natively through its core repository architectures....