A 'Shiny' App to Simulate the Dynamics of Epidemic and Endemic Diseases Spread.
EpiSimR
Overview
EpiSimR is an R Shiny application designed for simulating the dynamics of epidemic and endemic disease spread. It utilizes deterministic compartmental mathematical models to provide interactive visualizations and insights into disease transmission and control strategies.
Description
EpiSimR offers an interactive platform for modeling the spread of infectious diseases. Users can select different epidemiological models, including:
- SIR (Susceptible-Infectious-Recovered)
- SEIR (Susceptible-Exposed-Infectious-Recovered)
The app allows users to configure various parameters, such as:
- Inclusion or exclusion of permanent immunity
- Consideration of demographic changes
- Implementation of vaccination and isolation strategies
Users can adjust key epidemiological parameters, including:
- Basic reproduction number (R₀)
- Birth and mortality rates
- Infectious and latent periods
- Immunity duration
- Vaccination coverage
- Isolation rate
By modifying these parameters, users can simulate and visualize disease progression under different conditions and intervention strategies.
Installation
To install the package, use:
# Install from GitHub
devtools::install_github("NassimAyad87/EpiSimR", dependencies = TRUE)
Usage
Launch the Shiny application using:
library(EpiSimR)
run_app()
Features
Model Selection & Customization
- Choose between SIR and SEIR models.
- Include or exclude permanent immunity.
- Consider demographic changes.
- Customize vaccination and isolation strategies.
Parameter Adjustments
- Basic reproduction number (R₀)
- Birth and mortality rates
- Infectious period
- Latent period (for SEIR model)
- Immunity duration
- Vaccination coverage
- Isolation rate
Simulation & Interactive Visualization
- Real-time simulation of epidemic and endemic dynamics.
- Interactive graphical representation of disease spread over time.
- Visual assessment of public health intervention impacts (e.g., vaccination, isolation).
User-Friendly Interface
- Built with Shiny for an intuitive and interactive experience.
- Dynamic updates based on user inputs.
Application Purpose
- Serves as an educational and analytical tool for understanding epidemiological modeling.
- Assists in evaluating the effectiveness of public health interventions.
License
This package is licensed under the GPL-3 License.