neuropixels-analysis agent skill by K-Dense-AI

At a glance

Before you install

Read from the skill's files at the directory's October 22, 2026 snapshot: what ships with it, what its code reads, and the terms it is published under.

• Bundled scripts: 8 script files (8 Python). Your agent may run them, so read them first.
• Commands in SKILL.md: its code blocks run pip install, which fetches or runs software from outside the skill folder.
• Credential names SKILL.md mentions: ANTHROPIC_API_KEY.
• License: MIT, an open-source or open-content license.

Install neuropixels-analysis

The skills CLI works with Claude Code, Codex, Cursor and other agents; the other routes copy the folder by hand.

npx skills add https://github.com/K-Dense-AI/claude-scientific-skills/tree/main/skills/neuropixels-analysis

tmp="$(mktemp -d)"
git clone --depth 1 https://github.com/K-Dense-AI/claude-scientific-skills.git "$tmp/repo"
mkdir -p .claude/skills
cp -R "$tmp/repo/"skills/neuropixels-analysis .claude/skills/
rm -rf "$tmp"

tmp="$(mktemp -d)"
git clone --depth 1 https://github.com/K-Dense-AI/claude-scientific-skills.git "$tmp/repo"
mkdir -p .agents/skills
cp -R "$tmp/repo/"skills/neuropixels-analysis .agents/skills/
rm -rf "$tmp"

For a user-level install, copy the folder to ~/.claude/skills/ (Claude Code) or ~/.agents/skills/ (Codex). Inside Codex, $skill-installer can also fetch a skill from GitHub. New to skills? Read How to install agent skills in Claude Code, Codex and Cursor.

K-Dense-AI/claude-scientific-skills is third-party code. Read SKILL.md and any bundled scripts before you install it.

How the author describes it

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.

From the description field of SKILL.md. Agents read this line to decide when to load the skill.

Compatibility, from SKILL.md

Sections in SKILL.md

• Overview
• When to Use This Skill
• Supported Hardware & Formats
• Quick Start
• Import and configure parallel processing
• Loading data
• Full pipeline (bundled script)
• Standard Analysis Workflow
• 1. Preprocessing
• 2. Check and correct drift
• 3. Spike sorting
• 4. Postprocessing
• 5. Curation by metric thresholds
• 6. Model-based curation (UnitRefine)
• 7. AI-assisted curation (for uncertain units)
• 8. Export results

Files in the skill folder

• SKILL.md
• assets/analysis_template.py
• references/AI_CURATION.md
• references/ANALYSIS.md
• references/AUTOMATED_CURATION.md
• references/MOTION_CORRECTION.md
• references/PREPROCESSING.md
• references/QUALITY_METRICS.md
• references/SPIKE_SORTING.md
• references/api_reference.md
• references/plotting_guide.md
• references/standard_workflow.md
• scripts/_common.py
• scripts/compute_metrics.py
• scripts/explore_recording.py
• scripts/export_to_phy.py
• scripts/neuropixels_pipeline.py
• scripts/preprocess_recording.py
• scripts/run_sorting.py

Suede Skill Check: 87/100 · B

neuropixels-analysis passes the required frontmatter check and all seven graded checks, which cover the SKILL.md format, a declared license and a commit in the last year. Those checks earn 56 of the score’s points; the rest come from description quality, instruction depth, bundled files, maintenance and curated-list citations. How the score works.

Where this skill is cited

K-Dense-AI/claude-scientific-skills appears in 2 curated lists: BehiSecc/awesome-claude-skills, travisvn/awesome-claude-skills.

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