Neuroptimus

Neuroptimus is a graphical tool for fitting the parameters of neuronal models

Installation

Install git and type:

git clone https://github.com/mohacsimate/neuroptimus

Dependencies

The following python libraries are required:

• python
• numpy
• eFEL
• matplotlib

The following libraries are recommended:

• neuron
• scipy
• PyQt5
• inspyred
• pyelectro
• Pygmo
• bluepyopt
• ipyparallel
• nest
• nest_simulator

You can get all the libraries with pip with the following command (for numpy):

pip install numpy

Run Neuroptimus

You can run Neuroptimus (with a GUI) directly from its folder with (PyQt5 required):

python neuroptimus.py -g

Or for the command line version (you must specify a configuration file as well):

python neuroptimus.py -c path/to/example.json

Test Platforms

The package was tested on the following systems:

1. Ubuntu 22.04.1 LTS
2. Fedora release 32 (Thirty Two) (neurofedora)

Developers

Project Leader:

- Szabolcs Káli:
    kali@koki.hu

Lead Developer:

- Máté Mohácsi
mohacsi.mate@koki.mta.hu

- Sára Sáray
saray.sara@koki.mta.hu

- Márk Török Patrik
torok.mark.patrik@gmail.com

- Peter Friedrich:
    p.friedrich.m@gmail.com