Package for COVID-19 analysis with SIR-derived ODE models
Project description
Documentation | Installation/Dataset preparation | Quickest usage | API reference
CovsirPhy is a Python package for COVID-19 (Coronavirus disease 2019) data analysis with SIR-derived ODE models. Please refer to “Method” part of COVID-19 data with SIR model notebook in Kaggle to understand the methods.
Functionalities
Data preparation and data visualization
Numerical simulation of ODE models
Stable: SIR, SIR-D and SIR-F model
Development: SIR-FV and SEWIR-F model
Phase-dependent parameter estimation of ODE models
Scenario analysis: Simulate the number of cases with user-defined parameter values
Inspiration
Monitor the spread of COVID-19
Keep track parameter values/reproductive number in each country/province
Find the relationship of reproductive number and measures taken in each country/province
If you have ideas or need new functionalities, please join this project. Any suggestions with Github Issues are always welcomed. Please read Guideline of contribution in advance.
Installation and dataset preparation
We have the following options to start analysis with CovsirPhy. Datasets are not included in this package, but we can prepare them with DataLoader class.
Installation |
Dataset preparation |
|
---|---|---|
Standard users |
pip/pipenv |
Automated with DataLoader class |
Developers |
git-cloning |
Automated with DataLoader class |
Kagglers (local environment) |
git-cloning |
Kaggle API and Python script |
Kagglers (Kaggle platform) |
pip |
Kaggle Datasets |
Installation and dataset preparation explains how to install and prepare datasets for all users.
Stable version of Covsirphy is available at PyPI (The Python Package Index): covsirphy and supports Python 3.7 or newer versions.
pip install covsirphy --upgrade
We can install development version from GitHub repository.
!pip install "git+https://github.com/lisphilar/covid19-sir.git#egg=covsirphy"
Usage
Please read the following documents.
License: Apache License 2.0
Please refer to LICENSE file.
Citation
CovsirPhy Development Team (2020), CovsirPhy, Python package for COVID-19 analysis with SIR-derived ODE models, https://github.com/lisphilar/covid19-sir
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