CINPLA / edNEGmodel

An electrodiffusive neuron-extracellular-glia model with somatodendritic interactions

edNEGmodel

edNEGmodel is an implementation of the KNP continuity equations for a one-dimensional system containing six compartments: two representing a neuron, two representing extracellular space, and two representing glia. The model is presented in Sætra et al., PLoS Computational Biology, 17(7), e1008143 (2021): An electrodiffusive neuron-extracellular-glia model for exploring the genesis of slow potentials in the brain.

Installation

Clone or download the repo, navigate to the top directory of the repo and enter the following command in the terminal:

python3 setup.py install

The code was developed for Python 3.6.

Run simulations

The simulations folder includes example code showing how to run simulations. To reproduce the results presented in Sætra et al. 2021, see https://github.com/CINPLA/edNEGmodel_analysis.

Errata

• Table 1 in Sætra et al. 2021 says that the extracellular cross-section area A_e is 3.08e-11 m². However, the value used in our simulations is 6.16e-11 m². Thanks to Eirill Hauge and Letizia Signorelli for making us aware of this error.