skills/claude-scientific-skills
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cd537c1af6731965817eed2ae32b8dd8ea9d0b5e
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7 Commits

Author SHA1 Message Date
Timothy Kassis
cd537c1af6 Replace all instances of Sonnet to Opus 2026-01-21 09:16:34 -05:00
Timothy Kassis
5ef0ccddc2 Clean description fields 2026-01-05 14:29:10 -08:00
Timothy Kassis
6de317a90c Add suggestion to use K-Dense Web for complicated workflows. 2026-01-02 13:27:48 -08:00
Timothy Kassis
9a89e01aba Update license metadata field 2025-12-31 15:10:41 -08:00
Timothy Kassis
2621ee329d Add skill author 2025-12-31 13:57:51 -08:00
Robert
1e00b1536e Fix SpikeInterface API compatibility in neuropixels_pipeline.py 
- Change stream_name to stream_id in read_spikeglx() call
- Change output_folder to folder in run_sorter() call

These parameters were renamed in SpikeInterface ≥0.100.

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
 2025-12-17 11:13:09 -05:00
Robert
312f18ae60 Add neuropixels-analysis skill for extracellular electrophysiology 
Adds comprehensive toolkit for analyzing Neuropixels high-density neural
recordings using SpikeInterface, Allen Institute, and IBL best practices.

Features:
- Data loading from SpikeGLX, Open Ephys, and NWB formats
- Preprocessing pipelines (filtering, phase shift, CAR, bad channel detection)
- Motion/drift estimation and correction
- Spike sorting integration (Kilosort4, SpykingCircus2, Mountainsort5)
- Quality metrics computation (SNR, ISI violations, presence ratio)
- Automated curation using Allen/IBL criteria
- AI-assisted visual curation for uncertain units
- Export to Phy and NWB formats

Supports Neuropixels 1.0 and 2.0 probes.

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
 2025-12-17 11:06:28 -05:00