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Arbor Tutorial for NestConf

This tutorial take you from the bare bones concepts of bio-physically detailled cells to a simple network in Arbor. It is meant mainly for self-directed study and experimentation with the opportunity to ask questions. If you are tackling this on your own (i.e. not during a workshop), please contact us on Gitter.

Getting Started

You’ll need recent versions of Linux or MacOS, Python3, and possibly a C++ compiler. Start by cloning this repository and then open a shell:

python3 -m venv venv
source venv/bin/activate
pip3 install arbor numpy seaborn matplotlib networkx jupyter
jupyter lab

While your packages are being installed, you can take a look at the introduction in intro.pdf. Then, open the arbor-tutorial.ipynb notebook; everything else should follow from there.

Useful Links

Source code

https://github.com/arbor-sim/arbor/

Documentation

https://docs.arbor-sim.org/en/stable/

Chat server

https://app.gitter.im/#/room/#arbor-sim_community:gitter.im

This

https://github.com/thorstenhater/arbor-tutorial