AIDO is a tool designed to enhance situational awareness of an unfolding disease event. This capability is accomplished by providing context and a frame of reference for disease surveillance information through matching of user input to a library of global historical disease outbreaks.

This tool was previously known as the Surveillance Window Application (SWAP).

Points of contact: Geoffrey Fairchild and Alina Deshpande

The BRD is a tool to facilitate obtaining disease surveillance information. It contains disease surveillance resources, epidemiological models (previously known as the "BARD"), and a disease ontology.

In prototype testing

Point of contact: Alina Deshpande

Genomic EDGE is a highly adaptable bioinformatics platform that allows laboratories to quickly analyze and interpret genomic sequence data.

The bioinformatics platform allows users to address a wide range of use cases, including assay validation and the characterization of novel biological threats, clinical samples, and complex environmental samples.

Point of contact: Patrick Chain

Flu Forecasts are based on a model for probabilistic forecast of flu season. Percentage chance of flu peaking at a certain time is provided at national and regional level.

Point of contact: Sara del Valle

GOTTCHA is an application of a novel, gene-independent and signature-based metagenomic taxonomic profiling method with significantly smaller false discovery rates (FDR) that is also laptop deployable.

Point of contact: Patrick Chain

The pathogen databases suite comprises three databases that contain genomic sequence, drug resistance, and immunological data for Human Immunodeficiency Virus (HIV), Hemorrhagic Fever Viruses (HFV), and Hepatitis C Virus (HCV).

Point of contact: Bette Korber

Open-source software for data assimilation in Python; implementations of the Ensemble Kalman Filter (EnKF), Ensemble Kalman Smoother (EnKS), Particle Filter (PF), and Kernel Particle Filter (kPF); contains examples using an SIR disease model.

Point of contact: Kyle Hickmann

Open-source software to reconcile misspellings of tweets

Point of contact: Geoffrey Fairchild

QUAC is open-source software for acquiring and analyzing social Internet content.

Point of contact: Reid Priedhorsky

The QUIC Dispersion Modeling System is a fast response urban dispersion model that runs on a laptop.

Point of contact: Michael Brown

RED Alert is an analysis tool to provide early warning or detection of the re-emergence of an infectious disease—at the global level but through a regional lens—in order to facilitate long-term public health planning. 

Points of contact: Geoffrey Fairchild and Alina Deshpande

Sequedex is a tool that classifies DNA sequences by analyzing collections of sequences in new ways up to ~250,000 times faster than BLAST.

Point of contact: Ben McMahon