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medsci-agent: Skill for OpenCode

.opencode/skills/pubmed/SKILL.md

pubmed is a skill for OpenCode from omar-A-hassan/medsci-agent. It costs 20 tokens per session (305 once invoked), scanned A, original, MIT.

A skill for searching PubMed, a database of biomedical research papers. It can search by topics, medical subject terms, authors, journals, dates, and publication types, then retrieve abstracts by PMID.

In plain words
What is it for?
It helps find papers, retrieve abstracts, review clinical evidence, validate biological targets, and investigate whether existing drugs may fit another use.
Why use it?
It gives a structured way to find biomedical evidence instead of relying on broad, imprecise searches. Search filters help focus results on areas such as clinical trials or recent research.

Skill for OpenCode

Written for OpenCode: installed under .opencode/.

This is omar-A-hassan/medsci-agent's own configuration. It tells OpenCode how to work on medsci-agent itself, so it is not a mod to install elsewhere. Copy it as a starting point and replace the rules that are about this project. Everything medsci-agent configures →

not rated 17repo 2mo ago A scan 20 tokens original MIT
View source ↗ omar-A-hassan/medsci-agent
Reuse

Borrowing it

Nothing to install: this file belongs to omar-A-hassan/medsci-agent. Take a copy, put it at the same path in your own repository, and replace the rules that are about this project with yours.

Copy the file
curl -O https://raw.githubusercontent.com/omar-A-hassan/medsci-agent/main/.opencode/skills/pubmed/SKILL.md
Clone the repo
git clone --depth 1 https://github.com/omar-A-hassan/medsci-agent

Made for: OpenCode.

Wrote 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.

agentmods badge for pubmed

README.md
[![agentmods](https://agentmods.dev/badge/skills/omar-a-hassan/medsci-agent/pubmed/github.svg)](https://agentmods.dev/skills/omar-a-hassan/medsci-agent/pubmed)
Your own site
<a href="https://agentmods.dev/skills/omar-a-hassan/medsci-agent/pubmed"><img src="https://agentmods.dev/badge/skills/omar-a-hassan/medsci-agent/pubmed/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.

agentmods 80×15 button for pubmed

Your own site · 80×15
<a href="https://agentmods.dev/skills/omar-a-hassan/medsci-agent/pubmed"><img src="https://agentmods.dev/badge/skills/omar-a-hassan/medsci-agent/pubmed.svg" alt="Reviewed on agentmods" width="80" height="20"></a>
Per session 20 Skills are progressive disclosure: only the name and description are preloaded; the body loads when the skill is used.
When invoked 305 The whole file, excluding the scripts and references it only reads on demand.
Security scan A 0 findings. A grade says what 26 rules found in the file — not that it is safe.
Origin original No closer match found in the catalogue.
Token cost

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.

ModelPer sessionOnce invoked
Fable 5.1 $0.00020 $0.00305
Opus 5.5 $0.00008 $0.00122
Sonnet 5.5 $0.00004 $0.00061
Haiku 4.5 $0.00002 $0.00030

Measured 2mo ago against content hash 9ef19e946790, method: parsed. Prices are Anthropic first-party input rates as of 2026-10-07, from the pricing page.

Security

Grade A, and why

pubmed 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 2mo 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.

.opencode/skills/pubmed/SKILL.md · 33 lines

What it actually says

When to Use

  • Finding research papers on a biomedical topic
  • Retrieving abstracts for specific PMIDs
  • Building evidence for target validation or drug repositioning
  • Reviewing clinical evidence for a disease or treatment

Available Tools

  • search_pubmed(query) — Search with Boolean/MeSH support
  • fetch_abstract(pmid) — Get full abstract and MeSH terms

Search Tips

  • Use MeSH terms for precise results: "Breast Neoplasms"[MeSH]
  • Boolean operators: cancer AND immunotherapy NOT review
  • Field tags: [Title], [Author], [Journal]
  • Date ranges: "2024/01/01"[Date - Publication] : "2024/12/31"[Date - Publication]

Search Strategies

  • Broad search: Use general terms, sort by relevance
  • Focused search: Combine MeSH terms with Boolean AND
  • Clinical evidence: Add randomized controlled trial[pt] or meta-analysis[pt]
  • Recent advances: Sort by date, limit to last 2 years

Complementary Tools

  • Use search_openalex for broader cross-disciplinary search
  • Use search_clinical_trials for active/completed trials
Changes

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.

  1. 2mo ago First seen · 33 lines · 20 tokens per session scan A 9ef19e946790

Subscribe to this mod's changes

pubmed is a skill published in the GitHub repository omar-A-hassan/medsci-agent (17 stars, last pushed 2mo ago), licensed MIT. It adds 20 tokens to every session and 305 once invoked, about $0.0001 per session on Opus 5.5. 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.

ResearchScientificagentsmcpmedgemmaollamaopencodetxgemma
Related

pubmed compared with skills from other repositories

pubmed next to 6 skills from other repositories
ModTypeStarsLast pushLicenceScanTokensWorks with
pubmedomar-A-hassan/medsci-agentSkill172mo agoMITA20OpenCode
build-expression-treejimmc414/claude-code-plugin-marketplaceSkill4yesterdayMITA24Claude Code
find-convex-hulljimmc414/claude-code-plugin-marketplaceSkill4yesterdayMITA31Claude Code
dfam-checkearthtojake/text-to-cadSkill26kyesterdayMITA117Claude Code, Codex
peer-reviewxintaofei/codegSkill4.2k6d agoApache-2.0A71Claude Code
scientific-critical-thinkingxintaofei/codegSkill4.2k6d agoApache-2.0A63Claude Code
tooluniverse-phylogeneticsmims-harvard/ToolUniverseSkill1.8kyesterdayApache-2.0A155Claude Code