Site Contents
Use the below links or tabs above to navigate to different sections of the analysis.
- Data Preprocessing: Preparing data collected during animal experiment.
- Durations: Estimating phase durations.
- Room-to-Room: ABM Simulation of FMDV transmission through room-to-room contacts as performed during the animal experiment.
- Within-Herd: ABM Simulation of FMDV transmission within a cattle herd assuming homogeneous mixing.
- Between-Farm: ABM Simulation of FMDV transmission between farms related by a network. Farms are subject to quarantine and cattle movements.
External Resources
Archives of versioned data and code are available on the Open Science Framework (OSF):
FMDV Preclinical Transmission (DOI 10.17605/OSF.IO/P6XKE)
The manuscript describes simulations conducted with the challengeABM R-package
Overview, Design concepts, Details for the simulation code.
Shiny
A simple ShinyApp demonstrating Room-to-Room simulation. Click Run Experiment to run the simulation. The simulation will take approximately 10-15 to run and then produce plots showing results. Each click of the button will run the simulation using a different seed value.