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SpikeAI / 2022-11_brainhack_DetecSpikMotifs

2022-11_brainhack_DetecSpikMotifs: Automatic detection of spiking motifs in neurobiological data. This project aims to develop a method for the automated detection of repeating spiking motifs, possibly noisy, in ongoing activity.
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Spike Pattern Detection and Evaluation (SPADE) #6

Open AuroreSB opened 1 year ago

AuroreSB commented 1 year ago

https://github.com/INM-6/elephant Look at the documentation --> https://elephant.readthedocs.io/en/latest/reference/spade.html

laurentperrinet commented 1 year ago

a technical description: https://www.research-collection.ethz.ch/bitstream/handle/20.500.11850/365739/1-s2.0-S030326471930053X-main.pdf

laurentperrinet commented 1 year ago

see also

Cell assemblies at multiple time scales with arbitrary lag constellations Eleonora Russo (1), Daniel Durstewitz (1)

https://arxiv.org/pdf/1607.00969.pdf

laurentperrinet commented 1 year ago

an earlier description of SPADE is described in https://www.frontiersin.org/articles/10.3389/fncom.2017.00041/full

laurentperrinet commented 1 year ago

for a review, see "3.2. Decoding neural activity using spike distances" in https://laurentperrinet.github.io/publication/grimaldi-22-polychronies/grimaldi-22-polychronies.pdf

laurentperrinet commented 1 year ago

see also

Cell assemblies at multiple time scales with arbitrary lag constellations Eleonora Russo (1), Daniel Durstewitz (1)

https://arxiv.org/pdf/1607.00969.pdf

this method is also [available in elephant] !(https://elephant.readthedocs.io/en/latest/reference/cell_assembly_detection.html#cad-russo2017-e19428)

laurentperrinet commented 1 year ago

if you're using conda, consider using https://anaconda.org/conda-forge/pyfim to accelerate the mining using SPADE... (does not work on my arm64 version of macOS...)

@AntoineGrimaldi