Gtex Eqtl Skill for Codex

Fetch GTEx single-tissue eQTL associations from one variant input by accepting rsID, GRCh37, or GRCh38 input and resolving to the required GRCh38 query for the GTEx v2 API. Use when a user wants eQTL associations returned as JSON.

5k tokens

context cost

the whole folder, loaded on every use

files

ships runnable scripts

copies elsewhere

how many repositories repackaged it

4915

stars on the repo

on the repository, not the skill itself

Install

one command, takes just this skill from the repository

npx skills add https://github.com/openai/plugins --skill gtex-eqtl-skill

What comes with it

16 671 bytes besides the instruction

agents/openai.yaml

scripts/gtex_eqtl.py

scripts/variant_resolution.py

The instruction itself

4 sections, as written by the author

Operating rules

Use Python requests for all network calls.
Accept exactly one of rsid, grch37, grch38, or variant, and resolve to a GRCh38 chrom-pos-ref-alt query.
Convert to GTEx variantId format: chr{chrom}_{pos}_{ref}_{alt}_b38.
Always return one JSON object (no markdown) as final output.

Input

Accept JSON on stdin as either:

A string: "10-112998590-C-T" (treated as GRCh38)
An object:

{
  "grch38": "10-112998590-C-T",
  "max_results": 200
}

Other accepted object forms include:

{
  "grch37": "10-114758349-C-T"
}

{
  "rsid": "rs7903146",
  "max_results": 50
}

Allowed variant separators include -, :, _, /, or whitespace, for example:

10-112998590-C-T
10:112998590-C-T
10:112998590:C:T
chr10 112998590 C T

max_results is optional and truncates returned eQTL rows when provided.

Output

Success shape:

{
  "ok": true,
  "source": "gtex-v2",
  "input": {"type": "grch38", "value": "10-112998590-C-T"},
  "query_variant": {
    "chr": "10",
    "pos": 112998590,
    "ref": "C",
    "alt": "T",
    "canonical": "10:112998590-C-T",
    "variant_id": "chr10_112998590_C_T_b38"
  },
  "eqtl_count": 2,
  "eqtl_count_total": 2,
  "truncated": false,
  "eqtls": [],
  "paging_info": {},
  "warnings": []
}

Failure shape:

{
  "ok": false,
  "error": {"code": "...", "message": "..."},
  "warnings": []
}

Execution

Use:

scripts/gtex_eqtl.py

The script reads JSON from stdin and prints JSON to stdout.

Example:

echo '{"grch38":"10-112998590-C-T","max_results":5}' | python scripts/gtex_eqtl.py

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How to use it

Copy the folder

Take openai/gtex-eqtl-skill from the repository into ~/.claude/skills for personal use, or into .claude/skills inside a project.

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