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skill CX Codex GP ChatGPT official · OpenAI

ncbi-pmc-skill — Codex skill: query NCBI PMC metadata

Skill to search NCBI PMC Open Access for article availability metadata. Returns concise summaries by PMCID or DOI, saves raw XML on request.

Install into Codex · Skills CLI (Vercel) All methods and platforms ↓ 
npx skills add openai/plugins --skill ncbi-pmc-skill -a codex
Open on GitHub

What ncbi-pmc-skill does

ncbi-pmc-skill calls the NCBI PMC Open Access service and retrieves metadata about whether scientific articles are publicly available. It runs all queries through scripts/ncbi_pmc.py. By default it returns a compact markdown summary; set save_raw=true to save the full XML response to disk.

The skill accepts endpoint parameters like id (PMCID or DOI), max_items, and timeout_sec. In longer conversations, re-run requests instead of relying on cached tool output. If tool preview shows ..., that is UI truncation, not the actual request.

Install via npx skills add openai/plugins --skill ncbi-pmc-skill in Codex, or add -a claude-code for Claude Code. No additional dependencies.

What it helps with

  • retrieve article availability metadata by PMCID
  • find full-text access status via DOI lookup
  • check if a scientific paper is in PMC Open Access
  • export raw XML response for downstream processing

Example prompts for the agent

  • Look up PMC3257301 and tell me if it's open access
  • Query PMC by DOI 10.1093/nar/gkr1184, limit 10 results
  • Fetch NCBI PMC metadata for PMC3257301 and save as XML

How to install ncbi-pmc-skill

1Skills CLI (Vercel)

npx skills add openai/plugins --skill ncbi-pmc-skill -a codex

2Manually: put the files in place

.agents/skills/ncbi-pmc-skill/SKILL.md

For all projects use ~/.agents/skills/

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Questions about ncbi-pmc-skill

How do I install ncbi-pmc-skill in Codex?

Run npx skills add openai/plugins --skill ncbi-pmc-skill. For Codex specifically, use npx skills add openai/plugins --skill ncbi-pmc-skill -a codex. The skill file will be available at .agents/skills/ncbi-pmc-skill/SKILL.md.

What does ncbi-pmc-skill do?

It queries NCBI PMC Open Access for article metadata by PMCID or DOI and returns a brief summary. On request, it saves the full raw XML response.

What parameters does ncbi-pmc-skill accept?

Main parameter: id (PMCID like PMC3257301 or DOI like 10.1093/nar/gkr1184). Also max_items, max_depth, timeout_sec, save_raw, and raw_output_path to control response scope and format.

See also

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