QUALITY_METRICS

Comprehensive guide to unit quality assessment using SpikeInterface metrics and Allen/IBL standards.

Skills
Scientific
0

What it does and how to use it

A skill that teaches Claude Code to do scientific tasks well. It is packaged knowledge the model uses whenever it is relevant.

Install the skill (command above).
In Claude Code, describe what you need - the skill turns on by itself when the context fits.
No commands to memorize: you talk in plain language and the skill does the rest.

Install (Claude Code)

mkdir -p .claude/skills/quality-metrics && curl -fsSL https://doutorai.pt/data/lib/skills__quality-metrics.md -o .claude/skills/quality-metrics/SKILL.md

Paste this command into the terminal, in your project folder, and the component installs automatically.

Content

# Quality Metrics Reference

Comprehensive guide to unit quality assessment using SpikeInterface metrics and Allen/IBL standards.

## Overview

Quality metrics assess three aspects of sorted units:

| Category | Question | Key Metrics |
|----------|----------|-------------|
| **Contamination** (Type I) | Are spikes from multiple neurons? | ISI violations, SNR |
| **Completeness** (Type II) | Are we missing spikes? | Amplitude cutoff, presence ratio |
| **Stability** | Is the unit stable over time? | Drift metrics, amplitude CV |

## Computing Quality Metrics

```python
import spikeinterface.fu

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