https://github.com/bonsai-rx/machinelearning-examples
Example workflows, datasets, and demos for the Bonsai machine learning package
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Example workflows, datasets, and demos for the Bonsai machine learning package
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Metadata Files
README.md
Bonsai.ML - Examples
The Bonsai.ML project is a collection of packages built to target the Bonsai-Rx ecosystem, providing reactive infrastructure for machine learning operations.
In the Bonsai.ML - Examples repo, we provide example workflows, datasets, and demos for how to get started using the suite of Bonsai.ML packages that are currently available. We provide documentation for each example to illustrate how Bonsai.ML can be incorporated into Bonsai workflows.
For each Bonsai.ML package, check out the Getting Started page to learn more about how to run the example workflows yourself.
Datasets
All of the datasets used in these examples can be found by going to: https://doi.org/10.5281/zenodo.10629221.
ZebrafishExampleVid.avi - provided by Nicholas Guilbeault in the Thiele lab at the University of Toronto. If you would like to refer to this data, please cite Guilbeault, N.C., Guerguiev, J., Martin, M. et al. (2021). BonZeb: open-source, modular software tools for high-resolution zebrafish tracking and analysis. Scientific Reports 11, 8148, https://doi.org/10.1038/s41598-021-85896-x.
ForagingMouseExampleVid.avi - provided by the Sainsbury Wellcome Centre Foraging Behaviour Working Group. (2023). Aeon: An open-source platform to study the neural basis of ethological behaviours over naturalistic timescales, https://doi.org/10.5281/zenodo.8413142
ReceptiveFieldSimpleCell.zip - provided by the authors of "Touryan, J., Felsen, G., & Dan, Y. (2005). Spatial structure of complex cell receptive fields measured with natural images. Neuron, 45(5), 781-791." https://doi.org/10.1016/j.neuron.2005.01.029
HippocampalTetrodeRecordings.zip - provided by the authors of "Joshi, A., Denovellis, E.L., Mankili, A. et al. (2023). Dynamic synchronization between hippocampal representations and stepping. Nature, 617, 125–131." https://doi.org/10.1038/s41586-023-05928-6
StriatumNeuropixelsRecordings.zip - provided by the authors of "Thompson, E., Rollik, L., Waked, B. et al. (2024). Replay of procedural experience is independent of the hippocampus. bioRxiv, 2024.06.05.597547." https://doi.org/10.1101/2024.06.05.597547
Acknowledgements
Development of this package was supported by funding from the Biotechnology and Biological Sciences Research Council [grant number BB/W019132/1].
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- Name: Bonsai
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A visual language for reactive programming
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