The goal at the outset of my PhD was to simulate hippocampal or striatal
adult neurogenesis on
SpiNNaker.
The network would have been described using the
PyNN simulator-independent language.
This process entails several phases of potentially
increasing difficulty (this list is not exhaustive):
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Create a SpiNNaker based framework for defining rewiring synapses
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sPyNNaker (SpiNNaker's implementation of PyNN) synaptogenesis simulation -- replication of Simeon Bamford's doctoral thesis
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Extend framework to allow for Neurogenesis
At the time of writing, neurogenesis is not realised. However, extensive experiments have been performed using the synaptic rewiring model implemented on SpiNNaker. For more details, see below.
This repository is a collection of different experiments, mostly revolving around synaptic rewiring (synaptogenesis) with associated analysis scripts(simulation_statistics), sundry experiments (sundry) and ipynb notebooks (notebooks).
I have set up a Docker
container to easily experiment with structural plasticity
on SpiNNaker. It can be found under the tag structural_plasticity
for the
most up-to-date development version of the tools, while
structural_plasticity_5.1.0
contains the most recent (to the time of writing)
release of the SpiNNaker tools.
These containers include 3 iPython Notebooks which immediately run the most
common experiments presented in my thesis which use structural plasticity:
- Topographic map formation
- MNIST classification
- Motion detection
-
Student Conference Proceedings
Bogdan PA, Furber SB (2017) "Neurogenesis on SpiNNaker". Proceedings of the 1st HBP Student Conference - Transdisciplinary Research Linking Neuroscience, Brain Medicine and Computer Science, 75-77, ISBN: 978-2-88945-421-1 https://www.frontiersin.org/books/1st_HBP_Student_Conference_-_Transdisciplinary_Research_Linking_Neuroscience_Brain_Medicine_and_Com/1532
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Conference Proceedings
Bogdan PA, Pineda-García G, Davidson S, Hopkins M, James R and Furber SB (2019), "Event-based computation: Unsupervised elementary motion decomposition". Proceedings of Emerging Technology Conference
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Journal Articles
Bogdan PA, Rowley AGD, Rhodes O and Furber SB (2018) "Structural Plasticity on the SpiNNaker Many-Core Neuromorphic System". Front. Neurosci. 12:434. https://dx.doi.org/10.3389/fnins.2018.00434
Hopkins M, Pineda-García G, Bogdan PA, Furber SB (2018) "Spiking neural networks for computer vision". Interface Focus 8 20180007.
https://dx.doi.org/10.1098/rsfs.2018.0007 -
Thesis
Bogdan, PA (2020). Structural Plasticity on SpiNNaker (The University of Manchester). https://doi.org/10.13140/RG.2.2.33591.06568
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Data repositories
Bogdan PA, Rhodes O, Rowley AGD, Furber SB (2018) "Structural plasticity on the SpiNNaker many-core neuromorphic system", Mendeley Data, v1. https://dx.doi.org/10.17632/xfp84r5hb7.1
Bogdan PA, Furber SB, Pineda-Garcia G, Hopkins M (2018) “Spiking Neural Networks for Computer Vision”, Mendeley Data, v1. https://dx.doi.org/10.17632/84pvnm3rj3.1
Bogdan PA, Pineda-García G, Davidson S, Hopkins M, James R and Furber SB (2019), "Supporting Data and Software for Event-based computation: Unsupervised elementary motion decomposition", Mendeley Data, v1 https://dx.doi.org/10.17632/wpzxh93vhx.1
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Posters
Bogdan PA, Furber SB (2018) "Simulating synaptic rewiring on SpiNNaker". figshare. Poster. https://doi.org/10.6084/m9.figshare.6025460.v1
Bogdan PA, Furber SB (2018) "Structural plasticity for motion detection on SpiNNaker using PyNN". figshare. Poster. https://doi.org/10.6084/m9.figshare.6949091.v1