Report templates and helper functions for applied epidemiology

RECON learn: a free, open platform for training material on epidemics analysis

During outbreaks of emerging diseases such as COVID-19, efficiently collecting, sharing, and integrating data is critical to scientific research. outbreak.info is a resource to aggregate all this information into a single location.

Course on nowcasting and forecasting of infectious disease dynamcis

R package for estimation and monitoring of the effective reproduction number in a pathogen outbreak/epidemic

Understanding, evaluating, and improving forecasts of infectious disease burden

R package for handling linelist data

An R package for simulating line lists

Open an issue in this repository if you have general questions about RECON packages

In this training course you will find theory and practice material for introducing yourself to wgs analysis for bacterial, including outbreak investigation.

ISARIC VERTEX is a web-based application designed to present graphs and tables based on relevant research questions that need to be quickly answered during an outbreak. It serves as an analysis tool for data captured through our complementary tools: ISARIC ARC and ISARIC BRIDGE.

This geospatial project maps Marburg virus transmission, a zoonotic disease with high case fatality rates in Africa. It highlights the need for medical treatment, isolation, and quarantine measures. Vaccines and contact tracing can limit the global spread of epidemics

Latest outbreaks & news releases from CDC.gov

ISARIC ARC is a comprehensive machine-readable document that contains a library of questions to be used in Clinical Report Forms (CRFs) during disease outbreaks.

Bayesian SEIR model fitting to multiple facility outbreaks

BRIDGE is a web-based application designed to operationalize ARC and edit any ISARIC CRF and tailor it to outbreaks particular context.

Simulated data and experiments for the use of machine learning in outbreak parameter (CFR) estimation.

Office for Linelist Management

Documentation related to the project "Quantifying the Impact of Data Sharing on Outbreak Dynamics" (QIDSOD)