Top 30 epidemiology open source projects

COVID-19 App

Analysis of the COVID19 outbreak in Brazil mainly through epidemic and hospitalization models, by the Health Analytics and Prospera consulting business units of Funcional Heatlh Tech.

This is an Covid-19 tracker especially made for India

An agent-based epidemiology simulation framework built in Rust

Tutorial in Python targeted at Epidemiologists. Will discuss the basics of analysis in Python 3

Analysis with Covid-19 data

Agent-based simulation model for COVID-19 spread in society and patient outcomes

R Package for individual based epidemiological models

EpiTator annotates epidemiological information in text documents. It is the natural language processing framework that powers GRITS and EIDR Connect.

MTBseq is an automated pipeline for mapping, variant calling and detection of resistance mediating and phylogenetic variants from illumina whole genome sequence data of Mycobacterium tuberculosis complex isolates.

Public Available Code and Data to Reproduce Analyses in "Air pollution and COVID-19 mortality in the United States: Strengths and limitations of an ecological regression analysis."

COVID-19 Pandemic Data R Package

A framework for data-driven stochastic disease spread simulations

COVID-10 Analysis

Repository for Global.health: a data science initiative to enable rapid sharing of trusted and open public health data to advance the response to infectious diseases.

Source code for the EpiEstim app.

Pyro models of SARS-CoV-2 variants

📈 Track COVID-19 (2019 novel Coronavirus) statistics via the command line.

A magyarországi koronavírus járvány valós idejű, kvantitatív epidemiológiája.

Build Petri net models compositionally

🚦🏥. Ferramenta de monitoramento do risco de colapso no sistema de saúde em municípios brasileiros com a Covid-19 • Monitoring tool & simulation of the risk of collapse in Brazilian municipalities' health system due to Covid-19

June is a framework for agent based modelling in an epidemiological and geographical context.

Portal de dados do Projeto Alerta Dengue

Network Models of HIV Transmission Dynamics among MSM and Heterosexuals

Domain-Specific Modeling for Epidemiology

Bayesian spatial analysis

COVID-19 social distancing simulator

SEIR+ model

Machine-readable version of electronic health record phenotypes for Kuan V. and Denaxas S. et al.

A suite of tools for epidemiology in Python.