Open-SIR is an Open Source Python project for modelling pandemics and infectious diseases using Compartmental Models, such as the widely used Susceptible-Infected-Removed (SIR) model.
The current stage of the software is Alpha.
- Model the dynamics of infectious diseases
- Parameter fitting
- Calculation of confidence intervals
- CLI for interfacing with non Python environments (Bash, Node.JS, Matlab, etc).
For the API reference and examples of usage, please check the online documentation.
So far, Open-SIR provides an implementation of the SIR model and the novel SIR-X model developed by Maier and Dirk from the Robert Koch Institut.
The figure below illustrates how Open-SIR can be used to fit compartmental models to real data of coronavirus SARS-CoV-2 reported cases in a population of interest.
This is an example of using Open-SIR to fit the model developed by Maier and Brockmann, 2020, Containment explains subexponential growth in confirmed cases of recent COVID-19 in Mainland China, Science, DOI: 10.1126/science.abb4557 to Guangdong data.
Welcome to Open-Sir! Install Open-SIR using pip
git clone https://github.com/open-sir/open-sir.git
cd open-sir
pip install .Please follow Getting Started to get your hands on Open-SIR.
See also the list of contributors who participated in this project.
This project is licensed under the MIT License - see the LICENSE file for details.
- Robert Koch Institut for the clear explanation of SIR and SIR-X models.
Thanks goes to these wonderful people (emoji key):
 José Alamos 💻 📖 🚧 |
 Felipe Huerta 💻 📖 ✅ |
 Sebastián Salata 💻 🚧 🚇 |
 Leandro Lanzieri 💻 🚧 |
This project follows the all-contributors specification. Contributions of any kind are welcome!