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skill CX Codex GP ChatGPT official · OpenAI

ncbi-clinicaltables-skill — Codex skill: human gene search

This skill searches human genes through NCBI Clinical Tables and returns compact autocomplete-style rows. Use it for field selection and paginated results.

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

What ncbi-clinicaltables-skill does

The skill accepts search text and sends Clinical Tables NCBI requests through scripts/ncbi_gene_clinicaltables.py. You can choose response fields, set the result count, and use offset for the next page. By default, the agent returns a concise summary from the JSON; it can return the full JSON when explicitly requested.

Python and scripts/ncbi_gene_clinicaltables.py are required. The input JSON must include terms; request options go under params, and large responses can be saved with save_raw. Choose another skill when the task needs general Entrez Gene records rather than search rows.

Install it when Codex needs compact human gene lookup. Skip it for full Gene record retrieval.

What it helps with

  • look up a human gene by symbol or keyword
  • build compact autocomplete-style search rows
  • select GeneID, Symbol, and description fields
  • fetch the next result page with offset
  • save the full response to a file

Example prompts for the agent

  • Search for TP53 and return GeneID, Symbol, and description.
  • Show the next page for kinase using offset.
  • Return the full JSON and save it to a file.

How to install ncbi-clinicaltables-skill

1Skills CLI (Vercel)

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

2Manually: put the files in place

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

For all projects use ~/.agents/skills/

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Questions about ncbi-clinicaltables-skill

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

Run npx skills add openai/plugins --skill ncbi-clinicaltables-skill, then use .agents/skills/ncbi-clinicaltables-skill/SKILL.md.

What does ncbi-clinicaltables-skill do?

It searches human genes through NCBI Clinical Tables and returns compact rows with selected fields. Results can be paged with offset.

What does ncbi-clinicaltables-skill require?

It requires Python and scripts/ncbi_gene_clinicaltables.py. Pass the search text in terms, and put options such as df, count, and offset in params.

See also

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