Invagination

This is a mesoderm invagination simulation package for the article:

Mechanical impact of epithelial−mesenchymal transition on epithelial morphogenesis in Drosophila

Mélanie Gracia, Sophie Theis, Amsha Proag, Guillaume Gay, Corinne Benassayag, and Magali Suzanne https://www.nature.com/articles/s41467-019-10720-0

Try it with my binder by clicking the badge bellow:

Dependencies

• python > 3.6
• tyssue >= 0.3.3

Installation

This package is based on the tyssue library and its dependencies.

The recommanded installation route is to use the conda package manager. You can get a conda distribution for your OS at https://www.anaconda.com/download . Make sure to choose a python 3.6 version. Once you have installed conda, you can install tyssue with:

$ conda install -c conda-forge tyssue

You can then download and install invagination from github:

• with git:

$ git clone https://github.com/DamCB/invagination.git
$ cd invagination
$ python setup.py install

• or by downloading https://github.com/DamCB/invagination/archive/master.zip , uncompressing the archive and running python setup.py install in the root directory.

• or via

pip install invagination==0.0.2

Licence

This work is free software, published under the MPLv2 licence, see LICENCE for details.

© The article authors -- all rights reserved