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Visual Transduction Library for FlyBrainLab

This library provides executable neural circuit implementation of the retina of the fruit fly, including the visual transduction process. It is largely based on Neurokernel Request for Comment #3, and the implementation in the retina package for Neurokernel. This library is meant to work within FlyBrainLab, with visualization of biological data and an interactive circuit diagram.

Installation

Clone the repository and install by

python setup.py install

To work properly, it must be installed in the environment where you launch FlyBrainLab and in the server-side backend.

Basic Usage

At the backend, start a NeuroArch server with dataset retina, and a NLP server with dataset retina and app name medulla. Then configure FlyBrainLab to connect to the FFBO Process hosting the retina dataset. In Neu3D settings, set minSomaRadius to 0.

To load the setup in the NeuroArch database, run the notebook create_retina.ipynb.

To explore the retina circuit, an example is given by the notebook explore_retina.ipynb.

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