Public Health Python Packages

epiweeks

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

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-19 mortality surge period calculation for communities afflicted by the corona virus SARS-CoV-2

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.

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.

dii-calculator

A Python package for calculating the Dietary Inflammatory Index (DII) from nutrient intake data

lissero

In silico serotyping of Listeria monocytogenes

pydhis2

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

cryptogenotyper

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

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.

kudos

Tools for optimizing public health case definitions