BiœmuS: Biomimetic Emulation of Single compartment neurons

Overview

BiœmuS is a biomimetic real-time Spiking Neural Network (SNN) emulating single compartment Hodgkin & Huxley neurons running on SoC FPGA (AMD Zynq UltraScale+ MPSoC).

Maintainers: Timothée Lévi (timothee.levi@u-bordeaux.fr), Jérémy Cheslet (jeremy.cheslet@u-bordeaux.fr)

Authors: Romain Beaubois (beaubois@iis.u-tokyo.ac.jp), Jérémy Cheslet (jeremy.cheslet@u-bordeaux.fr)

Overview of the system architecture

Monitoring channels

Features

| Features | Details | |-------------------|---------------| | Neurons | FS, RS, LTS, IB| | Synapses | AMPA, NMDA, GABAa, GABAb | | Targets | KR260, KV260 | | Setup | Network configuration file + AXI-Lite | | Spikes monitoring | On-board file saving (DMA), ZeroMQ forwarding (DMA), Wi-Fi (PMOD ESP32) | | Waves monitoring | On-board file saving (DMA), ZeroMQ forwarding (DMA), DAC (PMOD DA4)|

Repository structure

• docs : documentation, figures and changelogs
• sw : software sources
  • host: configuration, emulation and monitoring scripts
  • target: C++ application, firmware, drivers and scripts for target

Documentation

Documentation is provided in docs/.

• Get started
• Create custom network configurations

Changelog

Changelogs are provided in docs/.

• Hardware Changelog: changes to the hardware design (Programmable Logic)
• Software Changelog: changes to the software design (C++ application + Python scripts)

Issues and Contributing

In case you find any issues that have not been reported yet, don't hesitate to open a new issue here on Github or consider contacting the maintainers.

Licensing

This project is licensed under GPLv3.

SPDX-License-Identifier: GPL-3.0-or-later

Publication

"BiœmuS: A new tool for neurological disorders studies through real-time emulation and hybridization using biomimetic Spiking Neural Network"

Romain Beaubois, Jérémy Cheslet, Tomoya Duenki, Giuseppe De Venuto, Marta Carè, Farad Khoyratee, Michela Chiappalone, Pascal Branchereau, Yoshiho Ikeuchi, Timothée Levi

Nature Communications - 20/06/2024.5142

doi: https://doi.org/10.1038/s41467-024-48905-x