Public Health Python Packages

epiweeks

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

starsim

Starsim disease modeling framework

gambit

A methodology to rapidly leverage whole genome sequencing of bacterial isolates for clinical identification.

us-water-quality-data

US drinking water quality data by ZIP code: EPA violations, typed lead/copper evidence, PFAS, radon, flood risk, and Home Safety Scores for 42,679 ZIPs. 66 federal/state sources. Updated weekly. CC BY 4.0.

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.

public-health-framework

Extensible Python framework for public-health data systems, validated imports, APIs, and offline dashboards.

covid-surge

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

anthro

Independent Python & JavaScript implementation of the WHO Child Growth Standards methodology.

saudeemdado-mcp

Servidor MCP do Saúde em Dado — a saúde do Brasil (DataSUS + IBGE) consultável por IA

bxp-sdk

BXP — Open universal file system standard for atmospheric exposure data. Like HTTP for air quality. No hardware required. Apache 2.0.

ucip

Decision-support platform ranking Mumbai's 24 wards by heat vulnerability, with cited nature-based cooling recommendations

dii-calculator

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

lissero

In silico serotype prediction for Listeria monocytogenes

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

pydhis2

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

saudeemdado

Cliente Python para a API pública do Saúde em Dado — mortalidade no Brasil (SIM/DataSUS, 2015–2024)

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.

nowcasting-sus

Bayesian nowcasting for Brazilian disease surveillance data (Sinan) - corrects reporting delay in real time with PyMC. `pip install nowcasting-sus`

kudos

Combinatorial optimization for developing public health case definitions