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ppi-network-analysis

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Use when you need a standardized R CLI workflow to build a protein-protein interaction network from a local gene list and an offline STRING cache, export node and edge tables, and render a reproducible PDF network plot. NOT for online API fetching, arbitrary graph databases, multi-omics integration, or non-STRING interaction sources.

awesome-med-research-skills/Data Analysis/ppi-network-analysis/SKILL.md

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Nov 9, 2026

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Sep 17, 2026
License
MIT

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> **Source**: [https://github.com/aipoch/medical-research-skills](https://github.com/aipoch/medical-research-skills)

# PPI Network Analysis

## When to Read External Files

| Situation | File to Read | Purpose |
|-----------|--------------|---------|
| Need algorithm details | `references/algorithm.md` | Explain local STRING mapping, interaction filtering, network metrics, and plot interpretation |
| Need to execute the analysis | `scripts/main.R` | Run the CLI entry point with a complete `Rscript` command |
| Encounter an error | `references/troubleshooting.md` | Map standardized error codes to causes and fixes |
| Need CLI examples or baseline usage | `references/cli-guide.md` | Review installation notes, offline cache requirements, and runnable examples |
| Need a runnable smoke test | `tests/data/` | Use the bundled small gene list for verification |

## Usage
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