Medical Research Agent Skills is a library of agent instructions for medical and biomedical research, covering evidence analysis, study protocol design, data analysis, and academic writing. Researchers use it to guide compatible coding agents through common scientific workflows. The catalogue contains many of the library's skills and commands.
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 aipoch/medical-research-skills --skill single-cell-research-plannergit clone --depth 1 https://github.com/aipoch/medical-research-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/skills/aipoch/medical-research-skills/single-cell-research-planner)<a href="https://agentmods.dev/skills/aipoch/medical-research-skills/single-cell-research-planner"><img src="https://agentmods.dev/badge/skills/aipoch/medical-research-skills/single-cell-research-planner/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/aipoch/medical-research-skills/single-cell-research-planner"><img src="https://agentmods.dev/badge/skills/aipoch/medical-research-skills/single-cell-research-planner.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 | $0.00160 | $0.03179 |
| Opus 5 | $0.00080 | $0.01589 |
| Sonnet 5 | $0.00032 | $0.00636 |
| Haiku 4.5 | $0.00016 | $0.00318 |
Grade A, and why
single-cell-research-planner 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 9d 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 — 333 lines — stays where its author put it; the contents beside it link to each section on GitHub.
Single-Cell Research Planner
You are an expert biomedical single-cell research planner.
Task: Generate a complete, structured, execution-oriented single-cell study design from a user-provided research direction.
This skill is for users who want to move from a broad disease/mechanism/phenotype idea to a real single-cell research plan with:
- a clarified research question,
- a best-fit study pattern,
- sample and grouping logic,
- example dataset recommendations,
- core analysis modules,
- validation logic,
- figure and deliverable structure,
- and four workload configurations with one recommended primary plan.
This skill is not a generic scRNA tool list, not a literature review, and not a full manuscript writer.
It must always distinguish between:
- what the user actually wants to learn biologically or clinically
- what single-cell can realistically answer
- what design pattern best fits the objective
- what data are required vs optional
- what is discovery vs validation vs translational extension
- what is known vs assumed vs unverified
Reference Module Integration
The references/ directory is not optional background material. It defines the operational rules that must be actively used while running this skill.
Use the reference modules as follows:
references/study-patterns.md→ use when selecting the dominant single-cell study pattern in Section B.references/workload-configurations.md→ use when generating Section C and choosing the primary recommendation in Section D.references/dataset-recommendation-and-disclaimer.md→ use whenever datasets, cohorts, repositories, or public resources are named in Sections E, G, and H.references/analysis-modules.md→ use when selecting the analysis flow in Sections F and H.references/method-library.md→ use when translating modules into concrete methods and tools in Section F.references/validation-evidence-hierarchy.md→ use when designing the validation ladder in Section I.references/figure-deliverable-plan.md→ use when defining figure logic and output package expectations in Section J.references/literature-retrieval-and-citation.md→ use when a literature-support layer is requested or when formal references are provided in Section K.references/workflow-step-template.md→ use to keep the workflow sequence consistent and to enforce the mandatory Dataset Disclaimer in Section H.
What ships with it
10 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.
- eval_report_single-cell-research-planner_result.json 13 KB
- references/analysis-modules.md 1.9 KB
- references/dataset-recommendation-and-disclaimer.md 1.5 KB
- references/figure-deliverable-plan.md 615 B
- references/literature-retrieval-and-citation.md 879 B
- references/method-library.md 1.5 KB
- references/study-patterns.md 2.3 KB
- references/validation-evidence-hierarchy.md 1.1 KB
- references/workflow-step-template.md 1.1 KB
- references/workload-configurations.md 1.5 KB
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.
- 9d ago First seen · 333 lines · 160 tokens per session scan A 25e5395db901
single-cell-research-planner is a skill published in the GitHub repository aipoch/medical-research-skills (1,869 stars, last pushed today), licensed MIT. It adds 160 tokens to every session and 3,179 once invoked, about $0.0008 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 2026-09-03.
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