Epigraphdb Skill for Codex

Submit compact EpiGraphDB API requests for ontology, literature, MR, gene-drug, and support-path evidence. Use when a user wants concise EpiGraphDB summaries

3k 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 epigraphdb-skill

What comes with it

10 827 bytes besides the instruction

agents/openai.yaml

scripts/rest_request.py

The instruction itself

6 sections, as written by the author

Operating rules

Use scripts/rest_request.py for all EpiGraphDB API calls.
Use base_url=https://api.epigraphdb.org.
Start with max_items=10 for list-style endpoints; use smaller caps for literature-heavy or pairwise endpoints if the response fans out quickly.
Prefer the connectivity guard endpoints first when endpoint availability matters: ping, builds, and meta/api-endpoints.
Re-run requests in long conversations instead of relying on older tool output.
Treat displayed ... in tool previews as UI truncation, not literal request content.

Execution behavior

Return concise markdown summaries from the script JSON by default.
Prefer targeted paths such as ontology/gwas-efo, gene/drugs, gene/druggability/ppi, mr, and literature/gwas.
If the user needs the full payload, set save_raw=true and report the saved file path.

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 EpiGraphDB patterns:
{"base_url":"https://api.epigraphdb.org","path":"ping"}
{"base_url":"https://api.epigraphdb.org","path":"ontology/gwas-efo","params":{"trait":"asthma","score_threshold":0.8,"fuzzy":true},"max_items":10}
{"base_url":"https://api.epigraphdb.org","path":"gene/drugs","params":{"gene_name":"IL6R"},"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://api.epigraphdb.org","path":"ontology/gwas-efo","params":{"trait":"asthma","score_threshold":0.8,"fuzzy":true},"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.

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How to use it

Copy the folder

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

Check the name does not clash

The agent identifies a skill by the name field in its header. Two skills with the same name cannot sit side by side — one of them will be ignored.