separable_phase_plane_symmetries
This project generates the figures of the phase plane symmetries of separable models in biology.
https://github.com/johannesborgqvist/separable_phase_plane_symmetries
Science Score: 44.0%
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Low similarity (7.6%) to scientific vocabulary
Repository
This project generates the figures of the phase plane symmetries of separable models in biology.
Basic Info
- Host: GitHub
- Owner: JohannesBorgqvist
- Language: Python
- Default Branch: main
- Size: 9.34 MB
Statistics
- Stars: 1
- Watchers: 2
- Forks: 0
- Open Issues: 0
- Releases: 0
Metadata Files
README.md
Visualising the phase-plane symmetries of separable models
Written by: Johannes Borgqvist
Date: 2022-07-12
Welcome to the github-repositry separable_phase_plane_symmetries! This project is entirely written in Python meaning that it is open-source, and our aim is that the results in the article entitled ``Phase-plane symmetries of separable models in biology'' (Reference to future article) should be reproducable. Let's describe the project and all the relevant packages!
Description of the project
This project concerns the symmetries of phase plane models that are commonly occuring in biology. Specifically, we consider the symmetries of the (u,v)-phase plane ODE of separable models. In particular we consider four different models, namely the Lotka-Volterra model, the SIR model, the linear model and the biological oscillator whose symmetries are illustrated below.
This repositry contains the python-scripts necessary for generating the above figure, and in particular these figures are generated by running the script "plot_phase_plane_symmetries.py" in the Code subfolder.
The required Python packages
The main Python packages are the following:
- scipy version:1.6.2,
- numpy version: 1.20.1,
- matplotlib version: 3.3.4.
These scripts have been developed on a computer with the OS Ubuntu 20.04. The version of Python that has been used is 3.8.8.
Owner
- Login: JohannesBorgqvist
- Kind: user
- Location: Oxford, UK
- Company: Mathematical Institute, University of Oxford
- Website: https://www.maths.ox.ac.uk/people/johannes.borgqvist
- Repositories: 5
- Profile: https://github.com/JohannesBorgqvist
I am a Post-Doc in Mathematical Biology. I model cell-migration using coupled system of PDEs of so called "reaction-diffusion" type.
Citation (CITATION.cff)
cff-version: 1.2.0
message: "If you use this software, please cite it as below."
authors:
- family-names: Borgqvist
given-names: Johannes Gabriel
orcid: https://orcid.org/0000-0001-6441-2942
title: "Generating the plots of the phase plane symmetries symmetries of separable models."
version: 1.0
doi: https://github.com/JohannesBorgqvist/separable_phase_plane_symmetries
date-released: 2022-07-12
preferred-citation:
type: article
authors:
- family-names: "Borgqvist"
given-names: "Johannes G."
orcid: "https://orcid.org/0000-0001-6441-2942"
doi: "https://github.com/JohannesBorgqvist/separable_phase_plane_symmetries"
journal: "https://github.com/JohannesBorgqvist/separable\\_phase\\_plane\\_symmetries"
month: 7
start: 1 # First page number
end: 10 # Last page number
title: "Generating the plots of the phase plane symmetries of\\\\ separable models."
issue: 1
volume: 1
year: 2022