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 skills add aristoteleo/PantheonOS --skill rare_diseasegit clone --depth 1 https://github.com/aristoteleo/PantheonOSWrote 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/skills/aristoteleo/pantheonos/rare_disease)<a href="https://agentmods.dev/skills/aristoteleo/pantheonos/rare_disease"><img src="https://agentmods.dev/badge/skills/aristoteleo/pantheonos/rare_disease/github.svg" alt="Measured on agentmods" height="20"></a>Or the 80×15 button, for a site that already has a row of RSS and ATOM ones. Only the verdict fits; the numbers stay here.
<a href="https://agentmods.dev/skills/aristoteleo/pantheonos/rare_disease"><img src="https://agentmods.dev/badge/skills/aristoteleo/pantheonos/rare_disease.svg" alt="Reviewed on agentmods" width="80" height="20"></a>- NVIDIA SkillSpector pass
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 | $0.00043 | $0.00451 |
| Opus 5 | $0.00022 | $0.00226 |
| Sonnet 5 | $0.00009 | $0.00090 |
| Haiku 4.5 | $0.00004 | $0.00045 |
Grade A, and why
Rare Disease Skills Index 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 13d 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
Agent Skills for Rare Disease Case Support
Curated playbooks for the rare disease MDT workflow. Each agent loads the skill file that matches its current task — do not inline these contracts into prompts.
Ontology-First Workflow
Deterministic normalization against the local Orphanet/OMIM/HPO layer before any online evidence retrieval. Disease alias normalization, phenotype alignment, xref resolution, and the SQLite query scripts live here.
Skill file: rd_ontology_first.md
When to use:
- Normalizing free-text phenotype or disease aliases (researcher,
ontologymode) - Resolving ORPHA/OMIM/MONDO/HPO cross-IDs before retrieval (researcher,
ontologymode) - Any candidate-name standardization step
Clinical Report Format
The authoritative format contract for the final clinical genetics consult report: cover page, 4-level numbering, 9 sections, sign-off block, machine-readable JSON, and the standalone HTML theme (embedded CSS, weasyprint PDF path).
Skill file: clinical_report_format.md
When to use:
- Producing the final report (leader, after audit)
- Any time a deliverable must follow the signed-report structure and theme
IMPORTANT: This file is the single source of truth for report layout and styling. The leader must follow it exactly rather than improvising structure or CSS.
Guardrails (apply across all rare disease skills)
- Ontology normalization comes before retrieval, never after.
- Do not fabricate xref IDs, PMIDs, DOIs, or database annotations.
- Do not present online evidence as ontology truth.
- The report is decision-support, never a definitive diagnosis.
What ships with it
4 files beside SKILL.md in the same directory: the scripts, references and assets a skill reads on demand. Not counted in the per-session cost; read them before you install if any of them is executable.
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.
- 13d ago First seen · 55 lines · 43 tokens per session scan A 62d607b09d57
Rare Disease Skills Index is a skill published in the GitHub repository aristoteleo/PantheonOS (485 stars, last pushed today), licensed BSD-2-Clause. It adds 43 tokens to every session and 451 once invoked, about $0.0002 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.
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