MOSAIC-data: Data for the Metapopulation Outbreak Simulation with Agent-based Implementation for Cholera

This repository contains the processed data used by the MOSAIC project, which simulates the transmission dynamics of cholera in Sub-Saharan Africa (SSA). The data provided here supports the work done in MOSAIC-pkg (R package) and MOSAIC-docs (documentation).

Repository Structure

The MOSAIC-data repository holds processed data used for simulation, modeling, and analysis. Note: The raw/ directory containing raw data is kept local and is not pushed to the remote repository. Below is an outline of the directory structure:

MOSAIC-data/       
├── raw/                  # Raw data files (local only)
├── processed/            # Directory for processed data files
│   ├── climate/          # Processed climate data
│   ├── demographics/     # Processed demographic data
│   ├── elevation/        # Processed elevation data
│   ├── ENSO/             # Processed ENSO data (climate oscillations)
│   ├── OAG/              # Processed flight mobility data
│   ├── shapefiles/       # Processed shapefiles for geographical regions
│   ├── WASH/             # Processed Water, Sanitation, and Hygiene (WASH) data
│   └── WHO/              # Processed WHO annual cholera data
│       ├── annual/       # Processed WHO annual cholera data (1949-2024)
│       └── weekly/       # Processed WHO weekly cholera data (2023-2024)

Data Processing

The raw data is processed using methods and functions available in the R package at MOSAIC-pkg. The processed data is saved under the processed/ directory and is used for model inputs, parameter estimations, and other analyses within the MOSAIC framework.

Contact

For any questions or further information about the MOSAIC project, please contact:

• John Giles: john.giles@gatesfoundation.org
• Jillian Gauld: jillian.gauld@gatesfoundation.org
• Rajiv Sodhi: rajiv.sodhi@gatesfoundation.org