neuropixels-analysis
Analyzes Neuropixels extracellular recordings end-to-end with SpikeInterface
by k-dense-aiFree
Description
neuropixels-analysis is an agent skill for analysing Neuropixels extracellular recordings from start to finish with SpikeInterface. It covers the full workflow from raw data to reviewed, curated units. It loads SpikeGLX, Open Ephys and NWB data, does preprocessing, corrects for drift and motion, and runs the steps that follow. The approach draws on current practice from SpikeInterface, the Allen Institute and the International Brain Laboratory. The skill targets SpikeInterface 0.105.0, ProbeInterface 0.4.0 and Neo 0.14.5, reviewed on 1 October 2026. Its synthetic tests cover recording contracts, preprocessing, analysers, metrics and exports. Real acquisition files, native sorters, GPU execution and pretrained models are described as illustrative, because they were not run. All examples use the real SpikeInterface API, together with its companion curation module. The skill ships runnable scripts and a copy-and-edit template that implement the workflow on top of SpikeInterface, so there is no separate package beyond the listed dependencies. Use it when you have high-density neural recordings and need a reproducible path through sorting and curation.…
Highlights
- Loads SpikeGLX, Open Ephys and NWB data
- Preprocessing and drift or motion correction
- Curation of units with SpikeInterface
- Runnable scripts and an editable template
- Targets SpikeInterface 0.105.0
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neuropixels-analysis FAQ
What does it analyse?
Neuropixels extracellular recordings, from raw data through preprocessing, sorting and curation.
Which data formats?
SpikeGLX, Open Ephys and NWB recordings.
Which tools does it rely on?
SpikeInterface, with its curation module, and the skill targets SpikeInterface 0.105.0, ProbeInterface 0.4.0 and Neo 0.14.5.
Were the real-data steps run?
Synthetic tests were run. Real acquisition files, native sorters, GPU execution and pretrained models are described as illustrative.
How do I install it?
Run npx skills add https://github.com/k-dense-ai/scientific-agent-skills --skill neuropixels-analysis.
Is it checked for security?
Its security audits show passes from Gen Agent Trust Hub, Socket and Snyk.
What are the best neuropixels-analysis alternatives?
Popular alternatives to neuropixels-analysis include bids, neurokit2 and batch-grill-me. See all neuropixels-analysis alternatives