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external-model-validation

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Use when validating an existing prognostic risk signature on an external bulk expression cohort with survival outcomes, producing risk scores, Kaplan-Meier curves, risk distribution plots, heatmap, and time-dependent ROC curves. NOT for: model training, feature selection, nomogram construction, calibration analysis, or single-cell data.

awesome-med-research-skills/Data Analysis/external-model-validation/SKILL.md

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# External Model Validation

## Input Validation

This skill accepts: an existing prognostic gene signature (model coefficient file with `Gene` and `Coef` columns), a bulk expression matrix in CSV format (genes as rows, samples as columns), and a clinical file with `OS` and `OS.time` survival columns.

If the user's request does not involve validating a pre-existing prognostic model on an external cohort — for example, asking to train a new model, perform feature selection, build a nomogram, run calibration curves, analyze single-cell data, or process data without survival endpoints — do not proceed with the workflow. Instead respond:

> "external-model-validation is designed to validate an existing prognostic risk signature on an external bulk expression cohort with survival outcomes. Your request appears to be outside this scope. Please provide a fixed model coefficient file plus expression and clinical data with OS/OS.time columns, or use a more appropriate tool for model training, nomogram construction, or single-cell analysis."

## When to Read External Files

| Situation | File to Read | Purpose |
|-----------|--------------|---------|
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