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neuropixels-analysis

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Analyzes Neuropixels extracellular recordings end-to-end with SpikeInterface. Covers loading SpikeGLX/Open Ephys/NWB data, preprocessing, drift/motion correction, Kilosort4 (and CPU) spike sorting, quality metrics, and unit curation (threshold-based, model-based UnitRefine, and AI-assisted visual review). Use when working with Neuropixels 1.0/2.0 recordings, spike sorting, or extracellular electrophysiology analysis.

skills/neuropixels-analysis/SKILL.md

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Nov 9, 2026
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MIT

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# Neuropixels Data Analysis

## Overview

Toolkit for analyzing Neuropixels high-density neural recordings using current best
practices from [SpikeInterface](https://spikeinterface.readthedocs.io/), the Allen
Institute, and the International Brain Laboratory (IBL). It covers the full workflow from
raw data to reviewed, curated units. Targets SpikeInterface 0.105.0,
ProbeInterface 0.4.0 and Neo 0.14.5 (reviewed 2026-10-01). Synthetic tests cover
recording contracts, preprocessing, analyzers, metrics and exports; real acquisition
files, native sorters, GPU execution and pretrained models remain illustrative.

All examples use the real SpikeInterface API (`spikeinterface.full as si`) plus the
companion curation module (`spikeinterface.curation as sc`). The skill ships runnable
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