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 biomed-outline-generatorgit 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/biomed-outline-generator)<a href="https://agentmods.dev/skills/aipoch/medical-research-skills/biomed-outline-generator"><img src="https://agentmods.dev/badge/skills/aipoch/medical-research-skills/biomed-outline-generator/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/biomed-outline-generator"><img src="https://agentmods.dev/badge/skills/aipoch/medical-research-skills/biomed-outline-generator.svg" alt="Reviewed on agentmods" width="80" height="20"></a>- NVIDIA SkillSpector warn
SkillSpector: 1 finding, up to high
These are SkillSpector’s own severities. On a checked sample its high-severity flags on skills were ~96% false positives — a documented command, a public API, a “never do X” rule — so we show them as a caution to read, not a verdict. Why →
- high System Prompt Leakage · line 187 Skill contains instructions that could directly expose system prompts, internal rules, or hidden instructions to users or external parties.Fix: Remove any instructions that reveal, print, or output system prompts or internal rules. System instructions should never be exposed to end users.
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 | $0.00049 | $0.01266 |
| Opus 5 | $0.00024 | $0.00633 |
| Sonnet 5 | $0.00010 | $0.00253 |
| Haiku 4.5 | $0.00005 | $0.00127 |
Grade A, and why
biomed-outline-generator 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 — 221 lines — stays where its author put it; the contents beside it link to each section on GitHub.
Biomedical Research Outline Generator
This is an Academic Writing skill for producing manuscript-grade biomedical outlines with deterministic headings and clear section logic.
Optional Validation Shortcut
If you want to confirm the local helper path exists before use:
python scripts/validate_skill.py --check
This helper is optional. The primary workflow is still direct outline generation from user input.
When to Use
Use this skill in biomedical contexts when the user wants one of these three outputs:
- Type I: Review Outline Input pattern: research directions, disease area, pathway keywords, or field description
- Type II: Discussion Outline Input pattern: results or discussion paragraphs containing observations, models, markers, statistics, or mechanisms
- Type III: Thesis / Proposal Outline
Input pattern:
Title:plus background, methods expectations, cohort notes, timeline, or validation requirements
When Not to Use
- The request is clearly non-biomedical.
- The user wants fabricated results, unsupported claims, or invented citations.
- The request is for a complete manuscript draft rather than an outline.
Required Inputs
- A biomedical topic, result paragraph, or proposal title with enough context to determine one of the three supported types.
Recommended:
- disease model or population
- key molecules, pathways, or interventions
- study aim or proposal objective
- any special formatting or institutional requirements
Type Recognition Rules
Type I: Review Outline
Use this type when the input is mostly:
- topic keywords
- field description
- research direction
Signals:
- no explicit
Title: - no detailed result paragraph
- no proposal/timeline language
Type II: Discussion Outline
Use this type when the input contains:
- observations or findings
- effect sizes or p-values
- model systems such as cell, mouse, cohort, or patient data
- mechanistic hints and limitations
What ships with it
2 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.
- 9d ago First seen · 221 lines · 49 tokens per session scan A bc08047c0433
biomed-outline-generator is a skill published in the GitHub repository aipoch/medical-research-skills (1,869 stars, last pushed today), licensed MIT. It adds 49 tokens to every session and 1,266 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 2026-09-03.
Other skills, from other repositories
statistical-modeling
Statistical modeling and machine learning for biomarker discovery, survival analysis, classification, regression, and model interpretation.
bulk-transcriptomics
Bulk RNA-seq and microarray differential expression analysis including method selection, batch correction, and complex experimental designs.
chromatin-regulation
Chromatin regulation analysis from called peaks and count matrices — differential binding, signal summarisation, peak annotation, and scATAC-seq.
spatial-omics
Spatial transcriptomics and spatial proteomics analysis covering technology-specific workflows, spatial statistics, deconvolution, and niche analysis.
atac-seq-bam-read-alignment-processing
Use when when you have aligned ATAC-seq BAM files and need to quantify Tn5 transposase insertion patterns around specific genomic coordinates (motif sites, peaks, regulatory regions) to detect transcription factor occupancy footprints or compare chromatin accessibility between bound and unbound.
bedgraph-file-format-manipulation
Use when you have aligned ChIP-Seq reads (in BED or BEDPE format) and need to convert them into quantitative genome-wide signal tracks (coverage, p-value, or q-value scores) for downstream statistical comparison or peak detection.