structured_inhibition_spatial_network_model/README.md

Functional aspects of interneuron morphology in the subiculum

Interneurons in the subiculum have a polar axonal cloud instead of a circular as found in other brain regions. Additionally, pyramidal neurons in the subiculum lack recurrent connections, but they connect via recurrent inhibition. Therefore, inhibition plays a major role in this circuitry and we pose the question, which function the extraordinary axon morphology serves in this setting.

Ressources

• Project wiki
• Shared dropbox
• Trello board
• Seafile

How to run the scripts

It is recommended to use Anaconda (https://www.continuum.io/downloads) to create a virtual environment with the necessary dependencies. With anaconda, it is a one button install. Af ter cloning the repository and changing into the root folder, type

conda env create -f environment.yml

This creates an environment called interneuron_polarity, which can be activated via

conda activate interneuron_polarity

To run the scripts, you also need to make the repository folder available in the python path (requires conda--build)

conda develop .

If you need additional packages, install them via conda install and update the environment file via

conda env export > environment.yml

To update the existing environment

conda-env update -f environment.yml