Getting it into your agent
One page per mod, every tool's command on it. A separate URL per tool would split the same page into five that compete with each other.
npx agentmods add instructions/ebispot/grebi/agents-mdgit clone --depth 1 https://github.com/EBISPOT/GrEBIWhat it costs to keep this loaded
Counted locally with the o200k_base tokenizer, which is exact for GPT models; Claude uses its own tokenizer and its counts differ. Treat this as one consistent yardstick across the catalogue rather than a bill. Prices are per million input tokens.
| Model | Per session | Once invoked |
|---|---|---|
| Fable 5 | $0.00271 | $0.00271 |
| Opus 5 | $0.00135 | $0.00135 |
| Sonnet 5 | $0.00054 | $0.00054 |
| Haiku 4.5 | $0.00027 | $0.00027 |
Grade A, and why
GrEBI AGENTS.md scanned grade A with 0 findings against 26 rules in 11 categories — prompt injection, anti-refusal, data exfiltration, privilege escalation, supply chain, agent snooping, system-prompt leakage, SSRF and excessive agency — measured 2d ago.
A static scan of the body, not an audit. Every finding is printed with the line that produced it so you can judge whether it matters here. A mod is markdown that instructs an agent; that is exactly why what it instructs is worth reading.
Nothing flagged
None of the 26 patterns this scan looks for appear in this file: no shell pipes, no recursive deletes, no credential paths, no hidden text, no instruction-override or anti-refusal phrasing, no agent-config snooping. That is not a guarantee, it is the absence of the things that are checkable.
What it actually says
The docs in docs/ provide a good introduction to GrEBI which you should read first.
Instructions for adding or updating a query template
These instructions are only relevant if you are working on behalf of a developer at EBI working on GrEBI, and if you are running locally in their environment: Yoi should have access to the grebi cypher service via Kubernetes. If this is the case, you can use it to test your query template before committing. Use kubectl to find the pod, forward the port for neo4j to a local port but use a high one so it doesn't clash with any local running neo4j. Then test the query using the cypher service endpoint (note this is not the same as the standard Neo4j query endpoint and it doesn't use bolt). You should establish some good examples for your query template and test them before finalizing it. When you are happy with the template, build and start the backend locally on a high port using the databases forwarded from k8s, also on high ports. You can use that local backend to run the query through GrEBI and be certain that it works. The initial metadata load in the backend can take several minutes before it binds the port. This is normal, don't try to bypass it by not using the real backend.
What this file has done since we first saw it
Hashed on every crawl. A supply-chain change to an agent config is a question of when, not whether, so the history is kept rather than the latest state alone.
- 2d ago First seen · 20 lines · 271 tokens per session scan A 8d499b139f1f
GrEBI AGENTS.md is an instructions file published in the GitHub repository EBISPOT/GrEBI (4 stars, last pushed 5d ago), licensed Apache-2.0. It adds 271 tokens to every session, about $0.0014 per session on Opus 5. A static security scan graded it A with 0 findings. No closer match exists in the catalogue, so it is treated as the original; first seen 2026-08-31.
Other instructions, from other repositories
OmicsClaw AGENTS.md
Instructions for TianGzlab/OmicsClaw, covering agents.md — omicsclaw guide for ai coding agents, repository working contract, project overview, setup and pip install -e .
ols4 AGENTS.md
Instructions for EBISPOT/ols4: This project has a knowledge graph at graphify-out/ with god nodes, community structure, and cross-file relationships.
wisp-science AGENTS.md
AGENTS.md instructions for xuzhougeng/wisp-science, covering agents.md, project orientation, repository layout, engineering rules and verification commands.
brapi-mcp-server AGENTS.md
Instructions for cyanheads/brapi-mcp-server, covering agent protocol, what's next?, core rules, patterns and tool — connection bootstrap.
scholion CLAUDE.md
Instructions for CrossRead/scholion, covering claude.md — project context for a new session, first of all, running it, architecture, the parts that matter and language.
asb-skill-collections copilot-instructions.md
Instructions for HolobiomicsLab/asb-skill-collections: This repository publishes the ASB Metabolomics Skill Collection (collections/metabolomics/v2/): 5,859 evidence-grounded skills over 909 software tools for computational LC-MS/MS metabolomics, each derived from a peer-reviewed method paper.