Borrowing it
Nothing to install: this file belongs to zamushwani/biomedical-ai-skills. Take a copy, put it at the same path in your own repository, and replace the rules that are about this project with yours.
curl -O https://raw.githubusercontent.com/zamushwani/biomedical-ai-skills/main/AGENTS.mdgit clone --depth 1 https://github.com/zamushwani/biomedical-ai-skillsWrote 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/zamushwani/biomedical-ai-skills/agents-md)<a href="https://agentmods.dev/instructions/zamushwani/biomedical-ai-skills/agents-md"><img src="https://agentmods.dev/badge/instructions/zamushwani/biomedical-ai-skills/agents-md/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/instructions/zamushwani/biomedical-ai-skills/agents-md"><img src="https://agentmods.dev/badge/instructions/zamushwani/biomedical-ai-skills/agents-md.svg" alt="Reviewed on agentmods" width="80" 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 | $0.00915 | $0.00915 |
| Opus 5 | $0.00458 | $0.00458 |
| Sonnet 5 | $0.00183 | $0.00183 |
| Haiku 4.5 | $0.00092 | $0.00092 |
Grade A, and why
biomedical-ai-skills 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 11d 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 — 63 lines — stays where its author put it; the contents beside it link to each section on GitHub.
AGENTS.md
Validated protocol files for cancer bioinformatics and multi-omics research.
This repository is a library of 16 SKILL.md files. Each is a self-contained protocol for one domain: what to run, which parameter values and why, and the mistakes that produce plausible-looking wrong answers. They are plain Markdown with no tool-specific syntax, so any agent can read them directly.
Using a skill
Read the relevant skills/<name>/SKILL.md before writing analysis code in that domain, and follow it in place of a default approach. Each file states when it applies in its own ## When to Use This Skill section.
| Skill | Domain |
|---|---|
cancer-multiomics |
Expression, mutation, CNV and methylation for TCGA/GEO |
immune-deconvolution |
Immune and stromal composition from bulk RNA-seq |
survival-analysis |
Kaplan-Meier, Cox, competing risks, RMST |
single-cell-atlas |
scRNA-seq from raw counts to annotation and trajectory |
spatial-transcriptomics |
Visium, Xenium, MERSCOPE, CosMx |
foundation-models |
scGPT, Geneformer, UCE, and when a linear baseline wins |
meta-analysis |
Systematic review, pooling, network meta-analysis |
variant-annotation |
VCF normalization, ACMG/AMP, oncogenicity, TMB, MSI |
drug-response |
Dose-response fitting, GDSC/CTRP, sensitivity prediction |
clinical-nlp |
Clinical text extraction, assertion, de-identification |
computational-pathology |
Whole-slide imaging, tiling, MIL, cell segmentation |
biomedical-mcp |
MCP servers over GDC, GEO and biomarker databases |
multiomics-integration |
MOFA+, SNF, iClusterPlus, DIABLO |
checkpoint-biomarkers |
PD-L1, TMB, MSI, IFN-gamma/TIS/TIDE signatures |
radiotherapy-response |
DDR profiling, Radiosensitivity Index, GARD |
epigenomics |
ATAC-seq and ChIP-seq, peak calling, differential binding |
Every skill carries a README.md (a gotchas summary) and a tests/ directory validating its claims against public data or live registries.
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.
- 11d ago First seen · 63 lines · 915 tokens per session scan A 05210e5df949
biomedical-ai-skills AGENTS.md is an instructions file published in the GitHub repository zamushwani/biomedical-ai-skills (1 stars, last pushed 12d ago), licensed MIT. It adds 915 tokens to every session, about $0.0046 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
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 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.
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.
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).