Public Health Python Packages

epiweeks

Epidemiological weeks calculation based on CDC (MMWR) and ISO week numbering systems

aihw-mcp

Query the Australian Institute of Health and Welfare in plain English from Claude or any MCP client. Mortality (GRIM/MORT), cancer incidence, health expenditure, youth justice detention, and the public hospitals register.

starsim

Starsim disease modeling framework

us-water-quality-data

US drinking water quality data by ZIP code — EPA violations, lead/copper levels, PFAS, radon, flood risk, and Home Safety Scores for 41,000+ ZIPs. 20 federal/state sources. Updated daily. CC BY 4.0.

covid-surge

Covid-Surge is a utility for computing and comparing mortality surge periods of communities afflicted by the COVID-19 virus pandemic.

episia

Python toolkit for epidemiological modelling and reporting. SIR/SEIR/SEIRD compartmental models, sensitivity analysis, interactive visualisations, and automated HTML/Markdown/JSON reports, built for low-resource health contexts.

cryptogenotyper

CryptoGenotyper is a tool that allows for subtyping the parasite, Cryptosporidium

dii-calculator

A Python implementation of the Dietary Inflammatory Index (DII) calculator for nutritional epidemiology research

lissero

In silico serotype prediction for Listeria monocytogenes

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.

pydhis2

Reproducible DHIS2 Python SDK for LMIC scenarios

kudos

Combinatorial optimization for developing public health case definitions