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 ehr-semantic-compressorgit 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/ehr-semantic-compressor)<a href="https://agentmods.dev/skills/aipoch/medical-research-skills/ehr-semantic-compressor"><img src="https://agentmods.dev/badge/skills/aipoch/medical-research-skills/ehr-semantic-compressor/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/ehr-semantic-compressor"><img src="https://agentmods.dev/badge/skills/aipoch/medical-research-skills/ehr-semantic-compressor.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 | $0.00049 | $0.02200 |
| Opus 5 | $0.00024 | $0.01100 |
| Sonnet 5 | $0.00010 | $0.00440 |
| Haiku 4.5 | $0.00005 | $0.00220 |
Grade A, and why
ehr-semantic-compressor 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 — 285 lines — stays where its author put it; the contents beside it link to each section on GitHub.
EHR Semantic Compressor
When to Use
- Use this skill when the task needs 1. Confirm the user objective, required inputs, and non-negotiable constraints before doing detailed work. 2. Validate that the request matches the documented scope and stop early if the task would require unsupported as.
- Use this skill for academic writing tasks that require explicit assumptions, bounded scope, and a reproducible output format.
- Use this skill when you need a documented fallback path for missing inputs, execution errors, or partial evidence.
Key Features
- Scope-focused workflow aligned to: 1. Confirm the user objective, required inputs, and non-negotiable constraints before doing detailed work. 2. Validate that the request matches the documented scope and stop early if the task would require unsupported as.
- Packaged executable path(s):
scripts/main.py. - Reference material available in
references/for task-specific guidance. - Structured execution path designed to keep outputs consistent and reviewable.
Dependencies
See references/requirements.txt for complete list.
Key dependencies:
- transformers >= 4.30.0
- torch >= 2.0.0
- spacy >= 3.6.0
- scispacy >= 0.5.3
Example Usage
See ## Usage above for related details.
cd "20260318/scientific-skills/Academic Writing/ehr-semantic-compressor"
python -m py_compile scripts/main.py
python scripts/main.py --help
Example run plan:
- Confirm the user input, output path, and any required config values.
- Edit the in-file
CONFIGblock or documented parameters if the script uses fixed settings. - Run
python scripts/main.pywith the validated inputs. - Review the generated output and return the final artifact with any assumptions called out.
Implementation Details
See ## Workflow above for related details.
- Execution model: validate the request, choose the packaged workflow, and produce a bounded deliverable.
- Input controls: confirm the source files, scope limits, output format, and acceptance criteria before running any script.
- Primary implementation surface:
scripts/main.py. - Reference guidance:
references/contains supporting rules, prompts, or checklists. - Parameters to clarify first: input path, output path, scope filters, thresholds, and any domain-specific constraints.
- Output discipline: keep results reproducible, identify assumptions explicitly, and avoid undocumented side effects.
What ships with it
7 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 · 285 lines · 49 tokens per session scan A b0d4107de2f2
ehr-semantic-compressor 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 2,200 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.
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