Small demo notebooks for tyssue
- Install tyssue from conda-forge in a python >= 3.6 environement:
conda install -c conda-forge tyssue-
Leasurely explore the notebooks
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You can even try it in MyBinder without installing anything:
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.