tyssue-demo

Small demo notebooks for tyssue

Usage

conda install -c conda-forge tyssue

00-Basic_Usage : Introduction to generation of tissue in 2D, data structure and input/output + specification

01-Geometry : Presentation of geometries include in tyssue.

02-Visualisation : Explanation of some plot functions.

03-Dynamics : Explanation of models and associated specs.

04-Solvers: Presentation of quasistatic and dynamic solver. Presentation of the object history.

05-Rearangments : Explanation of how rearangments works.

06-Cell_Division : Explanation of of how cell division works.

07-EventManager : Presentation of the eventManager object which manage events during simulation.

A-ReversibleNetworkReconnection : Reproduce the reversible network reconnection model from Okuda et al.

B-Apoptosis : Example of apoptotic cell on apical 3D epithelium.

C-2DMigration : Reproduce the model of Mapeng Bi et al. of cell migration in 2D epithelium.

D-FarhadifarModel : Exemple of the Farhadifar model from his paper in 2007.

Name		Name	Last commit message	Last commit date
Latest commit History 44 Commits
data		data
illus		illus
.gitignore		.gitignore
00-Basic_Usage.ipynb		00-Basic_Usage.ipynb
01-Geometry.ipynb		01-Geometry.ipynb
02-Visualization.ipynb		02-Visualization.ipynb
03-Dynamics.ipynb		03-Dynamics.ipynb
04-Solvers.ipynb		04-Solvers.ipynb
05-Rearangments.ipynb		05-Rearangments.ipynb
06-Cell_Division.ipynb		06-Cell_Division.ipynb
07-EventManager.ipynb		07-EventManager.ipynb
08-Debugging_example.ipynb		08-Debugging_example.ipynb
A-ReversibleNetworkReconnection.ipynb		A-ReversibleNetworkReconnection.ipynb
B-Apoptosis.ipynb		B-Apoptosis.ipynb
C-2DMigration.ipynb		C-2DMigration.ipynb
D-FarhadifarModel.ipynb		D-FarhadifarModel.ipynb
LICENSE		LICENSE
README.md		README.md
demo.gif		demo.gif
environment.yml		environment.yml
growth.gif		growth.gif
sheet3.gif		sheet3.gif
sheet3_bis.gif		sheet3_bis.gif
simple_growth.gif		simple_growth.gif
single_apopto.gif		single_apopto.gif