string-skill — Codex skill: what it does, how to install
Submits compact STRING API requests for protein networks and enrichment. Useful for retrieving quick biological summaries without leaving the terminal.
npx skills add openai/plugins --skill string-skill -a codexWhat string-skill does
The skill sends structured POST requests to the STRING API endpoints network, interaction_partners, and enrichment. By default, it condenses API results into markdown summaries rather than dumping raw payloads into the conversation. If machine-readable output is requested, it provides the unmodified JSON.
Execution relies on scripts/rest_request.py. Input passes as a JSON object through stdin, requiring base_url and path, alongside optional parameters like form_body and caller_identity. To prevent context overflow, requests to network and interaction endpoints default to limits of 10 items.
For enrichment endpoints, the tool summarizes the top 5 to 10 rows. When full outputs are needed, setting save_raw=true writes the raw response to a specified file path. Install this if you query STRING databases regularly; otherwise, it adds little value to non-biological workflows.
What it helps with
- retrieve interaction partners for target proteins
- request functional enrichment summaries for gene sets
- query protein interaction networks with strict item limits
- save raw STRING API payloads using
save_raw
Example prompts for the agent
- Find interaction partners for protein TP53 using STRING.
- Get enrichment rows for my gene list and summarize the top 5 items.
- Query the STRING network for TP53 and limit output to 10 records.
How to install string-skill
1Skills CLI (Vercel)
npx skills add openai/plugins --skill string-skill -a codex2Manually: put the files in place
.agents/skills/string-skill/SKILL.mdFor all projects use ~/.agents/skills/
1Skills CLI (Vercel)
npx skills add openai/plugins --skill string-skill -a claude-code2Manually: put the files in place
~/.claude/skills/string-skill/SKILL.mdCopy the whole skill folder; for one project use .claude/skills/string-skill/
Manually: put the files in place
.cursor/skills/string-skill/SKILL.mdCursor also reads .agents/skills/ and .claude/skills/
1GitHub CLI
gh skill install openai/plugins string-skill2Manually: put the files in place
.github/skills/string-skill/SKILL.mdPlatform CLI
gemini skills install https://github.com/openai/plugins --path plugins/life-science-research/skills/string-skillManually: put the files in place
.devin/skills/string-skill/SKILL.mdThe legacy .windsurf/skills/ path still works
Claude.ai
Zip the folder and upload it in Settings → Capabilities → Skills
From the same set201
The whole set →Similar
Questions about string-skill
How do I install string-skill in Codex?
Run npx skills add openai/plugins --skill string-skill. This adds the skill configuration to your Codex environment.
What does string-skill do?
It executes compact POST calls against STRING API paths like network, interaction_partners, and enrichment, returning clean markdown summaries.
What runtime dependencies does string-skill require?
It runs via Python using scripts/rest_request.py and reads JSON configurations from stdin without external runtime packages.
