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/holobiomicslab/asb-skill-collections/agents-mdgit clone --depth 1 https://github.com/HolobiomicsLab/asb-skill-collectionsWrote this? Show the measurements
A badge with what this costs and how it scanned, read live from this page, so it follows the numbers instead of freezing them. Markdown for a README, HTML for a documentation site or a project page.
[](https://agentmods.dev/instructions/holobiomicslab/asb-skill-collections/agents-md)<a href="https://agentmods.dev/instructions/holobiomicslab/asb-skill-collections/agents-md"><img src="https://agentmods.dev/badge/instructions/holobiomicslab/asb-skill-collections/agents-md.svg" alt="Measured on agentmods" height="20"></a>What 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 5.1 | $0.01832 | $0.01832 |
| Opus 5 | $0.00916 | $0.00916 |
| Sonnet 5 | $0.00366 | $0.00366 |
| Haiku 4.5 | $0.00183 | $0.00183 |
Grade A, and why
asb-skill-collections 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 6d 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.
How it starts
The opening of the file, as written. The whole thing — 142 lines — stays where its author put it; the contents beside it link to each section on GitHub.
AGENTS.md — install & use the ASB Metabolomics skills
Instructions for coding/research agents (Claude Code, OpenAI Codex, GitHub
Copilot, or any SKILL-aware agent) to install and use the ASB Metabolomics
Skill Collection. The public release is the metabolomics collection at
collections/metabolomics/v2/ (5,859 evidence-grounded skills over 909
software tools for computational LC-MS/MS; tag metabolomics-v0.2.0).
Full human guide:
collections/metabolomics/v2/USAGE.md.
Requirements
- Browse / search / read skills: nothing — plain Markdown + JSON.
- Helper scripts (
collect,release_gate,regen_catalogue): Python ≥ 3.8 + PyYAML (pip install -r scripts/requirements.txt). - Grounding binder (
perspicacite_kb_bind.py, bundled atbin/in every plugin/pack): Python ≥ 3.8 (stdlib only). Thekbbackend needs a running Perspicacité atPERSPICACITE_BASE(defaulthttp://127.0.0.1:8000; any embedding + LLM provider — models not prescribed; HolobiomicsLab literature-RAG engine, public availability TBD). Thelocalbackend needs onlygit+ network — no server. - Running a given skill's tool: install what that skill's frontmatter
tools:lists (R/Bioconductor, Python pkgs, or standalone tools like SIRIUS/MZmine) — seeUSAGE.md§0 andtools_index.json.
Install
Claude Code — plugin marketplace (native)
/plugin marketplace add HolobiomicsLab/asb-skill-collections
/plugin install metabolomics@asb-skill-collections
The entry point is skills/_router/SKILL.md — the only leaf-facing skill a host
advertises. The corpus ships beside it as data at
collections/metabolomics/v2/leaves/<slug>/SKILL.md and is read on demand, so
installing costs negligible context. Nothing else to configure.
OpenAI Codex — clone + reference (AGENTS.md aware)
git clone https://github.com/HolobiomicsLab/asb-skill-collections.git
# (or add as a submodule of your project)
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.
- 6d ago First seen · 142 lines · 1,832 tokens per session scan A 52dbe3848be1
asb-skill-collections AGENTS.md is an instructions file published in the GitHub repository HolobiomicsLab/asb-skill-collections (15 stars, last pushed 15d ago), licensed Apache-2.0. It adds 1,832 tokens to every session, about $0.0092 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 2026-08-30.
Other instructions, from other repositories
vscode buildNext.instructions.md
Working notes and architecture documentation for the new esbuild-based build system in build/next. Use when making changes to the new build pipeline (transpile/bundle commands, NLS plugin, source-map handling, resource copying, or self-hosting watch tasks).
spec-kit AGENTS.md
AGENTS.md instructions for github/spec-kit, covering agents.md, about spec kit and specify, quickstart — add a new integration in 5 steps, integration architecture and integrationmanifest — file tracking.
next.js AGENTS.md
AGENTS.md instructions for vercel/next.js, covering next.js development guide, codebase structure, monorepo overview, core package: packages/next and other important packages.
codex AGENTS.md
AGENTS.md instructions for openai/codex, covering rust/codex-rs, the codex-core crate, code review rules, crate api surface and model visible context.
vscode oss-third-party-notices.instructions.md
Instructions for microsoft/vscode, covering vs code oss third-party-notices pipeline, architecture, pipeline flow in ci, applying the notice (cutover) and fallback chain (never fail the build).
langchain AGENTS.md
AGENTS.md instructions for langchain-ai/langchain, covering global development guidelines for the langchain monorepo, corridor security analysis, project architecture and context, monorepo structure and development tools & commands.