neuropixels-analysis
OfficialNeuropixels data analysis from raw to curated units.
AuthorK-Dense-AI
Version1.0.0
Installs0
System Documentation
What problem does it solve?
End-to-end Neuropixels data analysis workflow—from preprocessing and drift correction to spike sorting, quality metrics, and Allen/IBL-style curation, with AI-assisted visualization and publication-ready outputs.
Core Features & Use Cases
- Preprocessing and drift correction: High-pass filtering, phase correction, common reference, and motion correction.
- Spike sorting: Running KS4/KS3/SpykingCircus2/Mountainsort5 and ensemble comparisons.
- Postprocessing and metrics: Waveforms, templates, spike amplitudes, and comprehensive quality metrics.
- Curation and export: Allen/IBL curation criteria; export to Phy or NWB.
- Visualization: Publication-quality plots and dashboards for unit quality and spike activity.
Quick Start
- Install SpikeInterface and neuropixels-analysis dependencies.
- Load raw data with si.read_spikeglx, run preprocessing, sorting, and postprocessing, then export results for curation.
Dependency Matrix
Required Modules
spikeinterfacenumpypandasmatplotlibscipyprobeinterface
Components
scriptsreferencesassets
💻 Claude Code Installation
Recommended: Let Claude install automatically. Simply copy and paste the text below to Claude Code.
Please help me install this Skill: Name: neuropixels-analysis Download link: https://github.com/K-Dense-AI/claude-scientific-skills/archive/main.zip#neuropixels-analysis Please download this .zip file, extract it, and install it in the .claude/skills/ directory.