Health Data Python Packages

hl7types

hl7types provides typed, Pydantic-powered Python models for HL7 v2 messages, segments, and datatypes, with built-in ER7 and XML serialisation. Models are generated directly from the HL7 specification, giving you full type safety, IDE autocompletion, and validation out of the box.

apple-health-mcp-server

Make Claude your personal health AI — locally.

aihw-mcp

MCP server for Australian Institute of Health and Welfare data. Plain-English access to mortality (GRIM/MORT), cancer incidence, health expenditure, youth justice detention, and the public hospitals register.

garmin-health-data

A simple Python CLI to download Garmin Connect data as local files and load them into a SQLite database for analysis

oura-ring

Python client for the Oura API v2 with OAuth2 support.

reflex-junction

Reflex custom component wrapping @tryvital/vital-link and integrating the Junction (Vital) health data SDK

whoop

Python client for the WHOOP API v2 with OAuth2 support.

bag-health-mcp

MCP server for Swiss Federal Office of Public Health (BAG) — infectious disease surveillance, epidemiological data & wastewater signals via the IDD API. No auth required.

vitabel

Python toolbox for plotting, processing, and interactively labeling vital data

aecg

Python parser and viewer for Annotated ECG HL7 files.

samsung-health-sdk

Parse and analyse Samsung Health export data as pandas DataFrames

pydhis2

🏥 A Modern and Resilient DHIS2 Client with Built-in WHO-DQR Validation for LMICs

datasus-db

Download and import DATASUS's public data to a DuckDB database

chartfold

Collect and consolidate personal health data from multiple EHR systems into a single queryable database

nhanes-pytool-api

A tool for programmatic access to NHANES downloadable datasets

medicaid-utils

Python toolkit for Medicaid claims data analysis — preprocessing, cleaning, risk adjustment (Elixhauser, CDPS-Rx), quality measures (PQI, BETOS, low-value care), and patient-level analytic file construction for MAX and TAF CMS data. Built on Dask for scalable processing of large-scale healthcare claims datasets.

lemonpie

A deep learning library for Electronic Health Record (EHR) data

heartbridge

Command line tool to transfer heart rate and other data from iOS Health to your computer. Works with a companion iOS shortcut.