String interaction partners starter

Skill ma-compbio-lab/SkillFoundry/skills/systems-biology/string-interaction-partners-starter

A framework for discovering, compiling, and validating reusable skills for scientific agents.

Install

npx -y skills add ma-compbio-lab/SkillFoundry --skill string-interaction-partners-starter

Assembled from the repository path, not quoted from the project. Check it against their README if it does not work.

SKILL.md

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STRING Interaction Partners Starter

Use this skill to query the official STRING API for high-confidence interaction partners of one gene or protein identifier and summarize the returned evidence in compact JSON.

What it does

Calls STRING's interaction_partners API for one identifier and one species.
Returns the query identifier, resolved STRING IDs, top partners, and confidence evidence scores.
Falls back to a committed canonical asset for the standard TP53 smoke path if STRING is temporarily unavailable.

When to use it

You need a lightweight official starter for protein-protein interaction analysis.
You want a quick candidate partner list before deeper network or pathway analysis.

Example

python3 skills/systems-biology/string-interaction-partners-starter/scripts/run_string_interaction_partners.py \
  --identifier-file skills/systems-biology/string-interaction-partners-starter/examples/tp53_query.txt \
  --species 9606 \
  --limit 5 \
  --required-score 700 \
  --out scratch/string/tp53_partners.json

Verification