Medical Python Packages

torchxrayvision

TorchXRayVision: A library of chest X-ray datasets and models. Classifiers, segmentation, and autoencoders.

medmnist

[pip install medmnist] 18x Standardized Datasets for 2D and 3D Biomedical Image Classification

biomcp-python

BioMCP: Biomedical Model Context Protocol

medpy

Medical image processing in Python

ngff-zarr

A lean and kind Open Microscopy Environment (OME) Next Generation File Format (NGFF) Zarr implementation.

edsnlp

Modular, fast NLP framework, compatible with Pytorch and spaCy, offering tailored support for French clinical notes.

asset-aware-mcp

Asset-Aware MCP Server — AI Agent precisely accesses tables, figures, sections from PDFs + .docx round-trip editing (DFM) with 46 tools / 13 resources, segmentation export, layout overlay, OCR preprocessing, knowledge graph (LightRAG)

pydicom-seg

Python package for DICOM-SEG medical segmentation file reading and writing

med-imagetools

Transparent and reproducible medical image processing pipelines in Python.

deid

best effort anonymization for medical images using python

biomcp-cli

BioMCP: Biomedical Model Context Protocol

fuse-med-ml

A python framework accelerating ML based discovery in the medical field by encouraging code reuse. Batteries included :)

mikan-rs

A medical image kit for segmentation metrics evaluation, native Rust support, and Python bindings for cross-language performance.

medical-mcps

MCP servers for biological and medical APIs

paperai

📄 🤖 AI for medical and scientific papers

delia

DICOM Extraction for Large-scale Image Analysis (DELIA).

fhir-kindling

Python library to simplify working with FHIR servers and resources.

rdm

Our regulatory documentation manager. Streamlines 62304, 14971, and 510(k) documentation for software projects.

labelfusion

Implementation of various label fusion approaches for medical imaging.

paperetl

📄 ⚙️ ETL processes for medical and scientific papers

python-daily-med

Python Library for interaction with US NLM Daily Med API

medical-ocr

Multi-engine OCR pipeline for medical and legal documents

faker-healthcare-provider

Generate realistic healthcare test data in 6 languages (en, es, pt, zh, fr, de): 150+ diseases with correlated ICD-10 codes, medications, symptoms, and more

zensols-mednlp

Medical natural language parsing and utility library