SortingView SpikeInterface Integration
Key Investigators
Jeremy Magland, Jeff Soules, Samuel Garcia, Alessio Buccino
Project Description
Integrate SortingView capabilities with the SpikeInterface project.
Objectives
Create and document utilities for visualizating ephys data and spike sorting results.
Approach and Plan
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Refactor widgets to have multiple backends
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Additional code to prepare data in SI and plot it/share it in figurl
Progress and Next Steps
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During the hackathon, the widgets have been refactored to enable multiple backends (https://github.com/SpikeInterface/spikeinterface/pull/686)
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A proof of concept widget (UnitWaveforms) has been implemented in both backends
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An additional notebook uses the SI module to postprocess the data from a recording and a sorting object and prepare all the plotting elements for a figurl backend (see partial example)
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Next, we need to finalize the implementation of the sortingview backends in SI and port the notebook code to the main repo as an
export_figurl_report()function.
Materials
Background and References
- SpikeInterface: https://github.com/SpikeInterface/spikeinterface
- SortingView: https://github.com/magland/sortingview
- Figurl: https://github.com/scratchrealm/figurl2
- Kachery-cloud: https://github.com/scratchrealm/kachery-cloud
- Figurl-tiled-image: https://github.com/scratchrealm/figurl-tiled-image
Example load and preview ephys data: https://gist.github.com/magland/470241dee3b36d37edc852f3f0707f35