neuropixels-analysis
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.
- Version
- 2.6
- License
- MIT license
- Compatibility
- Requires Python 3.10+ with SpikeInterface, ProbeInterface, Neo, NumPy, SciPy, pandas, matplotlib, numba and scikit-learn. Optional sorters and models need separate dependencies and network access.
Pinned to revision 68105dd992f1, so it is the text this page describes rather than whatever the author pushed since.
Files
- skills/neuropixels-analysis/SKILL.md
- skills/neuropixels-analysis/SKILL_CN.md
- skills/neuropixels-analysis/assets/analysis_template.py
- skills/neuropixels-analysis/references/AI_CURATION.md
- skills/neuropixels-analysis/references/ANALYSIS.md
- skills/neuropixels-analysis/references/AUTOMATED_CURATION.md
- skills/neuropixels-analysis/references/MOTION_CORRECTION.md
- skills/neuropixels-analysis/references/PREPROCESSING.md
- skills/neuropixels-analysis/references/QUALITY_METRICS.md
- skills/neuropixels-analysis/references/SPIKE_SORTING.md
- skills/neuropixels-analysis/references/api_reference.md
- skills/neuropixels-analysis/references/plotting_guide.md
- skills/neuropixels-analysis/references/standard_workflow.md
- skills/neuropixels-analysis/scripts/_common.py
- skills/neuropixels-analysis/scripts/compute_metrics.py
- skills/neuropixels-analysis/scripts/explore_recording.py
- skills/neuropixels-analysis/scripts/export_to_phy.py
- skills/neuropixels-analysis/scripts/neuropixels_pipeline.py
- skills/neuropixels-analysis/scripts/preprocess_recording.py
- skills/neuropixels-analysis/scripts/run_sorting.py
Every link opens the file at its source, pinned to the revision this page describes.