Neuropixels Analysis

---
name: neuropixels-analysis
description: Analyze 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.
license: MIT license
required_environment_variables: [{"name": "ANTHROPIC_API_KEY", "prompt": "For optional Claude API calls.", "required_for": "optional features"}]
metadata: {"version": "2.1", "skill-author": "K-Dense Inc.", "openclaw": {"primaryEnv": "ANTHROPIC_API_KEY", "envVars": [{"name": "ANTHROPIC_API_KEY", "required": false, "description": "For optional Claude API calls."}]}}
---

# 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 publication-ready curated units.

All examples use the real SpikeInterface API (`spikeinterface.full as si`) plus the
companion curation module (`spikeinterface.curation as sc`). The skill ships runnable
scripts in `scripts/` and a copy-and-edit template in `assets/` that implement this
workflow directly on top of SpikeInterface — there is no separate package to install
beyond the dependencies listed under [Installation](#installation).

## When to Use This Skill
… load the full skill through Skill Me