Skip to main content
Data Science & AIopenai

eqtl-catalogue-skill

Submit compact eQTL Catalogue API requests for association retrieval and documented metadata endpoints. Use when a user wants concise public eQTL Catalogue summaries

Stars
1,305
Source
openai/plugins
Updated
2026-05-30
Slug
openai--plugins--eqtl-catalogue-skill
View on GitHubRaw SKILL.md

// install — copy + paste into any project

mkdir -p .claude/skills && curl -fsSL https://raw.githubusercontent.com/openai/plugins/HEAD/plugins/life-science-research/skills/eqtl-catalogue-skill/SKILL.md -o .claude/skills/eqtl-catalogue-skill.md

Drops the SKILL.md into .claude/skills/eqtl-catalogue-skill.md. Works with Claude Code, Cursor, and any agent that loads SKILL.md files from .claude/skills/.

Operating rules

  • Use scripts/rest_request.py for all eQTL Catalogue calls.
  • Use base_url=https://www.ebi.ac.uk/eqtl/api.
  • Prefer targeted association endpoints over broad list endpoints.
  • The public API currently appears strict about query validation, and live smoke tests returned intermittent 400/500/timeout failures even with documented parameter sets; treat this source as usable but upstream-fragile.
  • For association endpoints, the script now backfills compatibility defaults for quant_method, p_lower, p_upper, and blank filter strings because the live API is currently rejecting omitted optional filters.
  • Prefer variant_id in requests; the script mirrors it to the legacy snp query key to accommodate the current server-side validator.
  • Re-run requests in long conversations instead of relying on older tool output.

Execution behavior

  • Return concise markdown summaries from the script JSON by default.
  • Return raw JSON only if the user explicitly asks for machine-readable output.
  • Prefer documented versioned paths such as v3/studies, v3/associations, v3/studies/<study_id>/associations, or legacy v1/.../associations routes with explicit filters, and surface upstream 400/500 errors verbatim when they occur.

Input

  • Read one JSON object from stdin.
  • Required fields: base_url, path
  • Optional fields: method, params, headers, json_body, form_body, record_path, response_format, max_items, max_depth, timeout_sec, save_raw, raw_output_path
  • Common eQTL Catalogue patterns:
    • {"base_url":"https://www.ebi.ac.uk/eqtl/api","path":"v3/studies","max_items":10}
    • {"base_url":"https://www.ebi.ac.uk/eqtl/api","path":"v3/associations","params":{"gene_id":"ENSG00000141510","rsid":"rs7903146","size":10},"max_items":10}
    • {"base_url":"https://www.ebi.ac.uk/eqtl/api","path":"v1/genes/ENSG00000141510/associations","params":{"variant_id":"rs7903146","size":10},"max_items":10}

Output

  • Success returns ok, source, path, method, status_code, warnings, and either compact records or a compact summary.
  • Use raw_output_path when save_raw=true.
  • Failure returns ok=false with error.code and error.message.

Execution

echo '{"base_url":"https://www.ebi.ac.uk/eqtl/api","path":"v3/studies","max_items":10}' | python scripts/rest_request.py

References

  • No additional runtime references are required; keep the import package limited to this file and scripts/rest_request.py.