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 YuanyuanMa03/academic-research-skills --skill nature-academic-searchgit clone --depth 1 https://github.com/YuanyuanMa03/academic-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/yuanyuanma03/academic-research-skills/nature-academic-search)<a href="https://agentmods.dev/skills/yuanyuanma03/academic-research-skills/nature-academic-search"><img src="https://agentmods.dev/badge/skills/yuanyuanma03/academic-research-skills/nature-academic-search/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/yuanyuanma03/academic-research-skills/nature-academic-search"><img src="https://agentmods.dev/badge/skills/yuanyuanma03/academic-research-skills/nature-academic-search.svg" alt="Reviewed on agentmods" width="80" height="20"></a>- NVIDIA SkillSpector warn
SkillSpector: 1 finding, up to medium
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 →
- medium Data Exfiltration · line 104 Data is being sent to an external URL. This could be legitimate telemetry or data exfiltration. Manual review is recommended.Fix: Verify the destination URL is trusted and necessary. Remove or replace with documented APIs. Ensure no secrets, tokens, or PII are transmitted.
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 | $0.00074 | $0.01464 |
| Opus 5.5 | $0.00030 | $0.00586 |
| Sonnet 5.5 | $0.00015 | $0.00293 |
| Haiku 4.5 | $0.00007 | $0.00146 |
Grade A, and why
nature-academic-search 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 1mo 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 — 139 lines — stays where its author put it; the contents beside it link to each section on GitHub.
Academic Search
Multi-source literature search, citation verification, citation format conversion, and reference management via MCP tools.
MCP Tools
Bundled MCP Server (academic-search)
The bundled MCP server provides these tools — use these names when calling the server:
| Tool | Purpose |
|---|---|
search_papers |
Multi-source search across CrossRef, PubMed, arXiv (concurrent) |
get_paper_by_id |
Fetch paper by DOI, PMID, or arXiv ID |
get_citation |
Formatted citation output (APA, MLA, BibTeX, etc.) |
lookup_mesh |
MeSH term exploration and hierarchy |
External MCP Tools (require separate installation)
The following tools are referenced in workflows but require external MCP servers to be installed separately. If unavailable, fall back to the bundled search_papers tool.
| Tool | Source | Best For |
|---|---|---|
pubmed_search_articles |
PubMed MCP | Biomedical, MeSH, clinical trials |
search_crossref |
paper-search MCP | Cross-disciplinary, citation counts |
search_arxiv |
paper-search MCP | Preprints (physics, math, CS, biology) |
Extended Search (external only)
| Tool | Source | Best For |
|---|---|---|
search_google_scholar |
paper-search MCP | Broad academic search (scraped) |
search_semantic_scholar |
paper-search MCP | Citation graph, field-of-study filters |
search_biorxiv |
paper-search MCP | Biology preprints |
search_medrxiv |
paper-search MCP | Medical preprints |
search_webofscience |
paper-search MCP | Curated index, citation reports |
search_scopus |
paper-search MCP | Broad scholarly database |
PubMed Utilities
| Tool | Purpose |
|---|---|
pubmed_fetch_articles |
Full metadata by PMID |
pubmed_find_related |
Related article discovery |
pubmed_format_citations |
APA / MLA / BibTeX / RIS formatting |
pubmed_convert_ids |
DOI ↔ PMID ↔ PMCID conversion |
pubmed_lookup_mesh |
MeSH term exploration and hierarchy |
pubmed_lookup_citation |
Bibliographic citation → PMID lookup |
What ships with it
45 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.
- config/mcp-snippet.json 502 B
- config/settings-snippet.json 59 B
- config/triggers-academic-search.toml 477 B
- install.sh 4.3 KB runs code
- manifest.yaml 2.7 KB
- mcp-server/academic_search_server.py 12 KB runs code
- mcp-server/config.toml 249 B
- mcp-server/README.md 1.9 KB
- mcp-server/requirements.txt 109 B
- mcp-server/sources/__init__.py 352 B runs code
- mcp-server/sources/arxiv.py 11 KB runs code
- mcp-server/sources/crossref.py 6.8 KB runs code
- mcp-server/sources/elsevier_common.py 2.4 KB runs code
- mcp-server/sources/pubmed.py 10 KB runs code
- mcp-server/sources/sciencedirect.py 6.9 KB runs code
- mcp-server/sources/scopus.py 19 KB runs code
- mcp-server/tests/__init__.py 40 B runs code
- mcp-server/tests/test_elsevier_live.py 2.6 KB runs code
- mcp-server/tests/test_mcp_tools.py 2.6 KB runs code
- mcp-server/tests/test_sources.py 26 KB runs code
- mcp-server/utils/__init__.py 359 B runs code
- mcp-server/utils/config.py 1.4 KB runs code
- mcp-server/utils/errors.py 620 B runs code
- mcp-server/utils/logging.py 1.1 KB runs code
- README.md 2.3 KB
- references/citation-parser.md 2.7 KB
- references/dedup-engine.md 1.9 KB
- references/pubmed-28344011.bib 3.3 KB
- references/pubmed-28344011.nbib 12 KB
- references/pubmed-28344011.ris 3.4 KB
- references/ris-bibtex-format.md 4.3 KB
- references/search-strategy.md 2.0 KB
- references/source-tiers.md 2.7 KB
- references/workflows/wf1-multi-source-search.md 1.9 KB
- references/workflows/wf2-citation-verification.md 1.6 KB
- references/workflows/wf3-mesh-strategy.md 538 B
- references/workflows/wf4-citation-file-mgmt.md 1.4 KB
- references/workflows/wf5-reference-mgmt.md 1.3 KB
- scripts/academic_search.py 20 KB runs code
- scripts/converters.py 18 KB runs code
- scripts/format-converter.py 19 KB runs code
- scripts/preflight.py 3.7 KB runs code
- scripts/run_academic_search_mcp.py 2.1 KB runs code
- static/core/routing-and-ops.md 4.9 KB
- static/core/tools.md 3.0 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.
- 1mo ago First seen · 139 lines · 74 tokens per session scan A 507001e99940
nature-academic-search is a skill published in the GitHub repository YuanyuanMa03/academic-research-skills (75 stars, last pushed today), licensed MIT. It adds 74 tokens to every session and 1,464 once invoked, about $0.0003 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.
Other skills, from other repositories
paper2poster-poster
Use when the user wants to turn an academic paper into a conference poster, poster outline, poster copy deck, poster layout brief, poster.yaml style draft, or Paper2Poster-ready generation package. Trigger for paper-to-poster requests involving PDF papers, arXiv links, manuscripts, PPTX posters, conference…
manuscript-optimizer
Use when auditing, restructuring, or revising a research manuscript whose scientific question, claim hierarchy, evidence chain, section logic, figures, terminology, or prose may be unclear or out of sync. Apply before sentence-level polishing, especially for whole drafts, major revisions, resubmissions, overclaiming…
review-article-architecture
Use when writing, restructuring, or auditing a Review, survey, or Perspective rather than a research article, especially a commissioned one written across many sessions. Covers the governing plan document, drift detection, single-definition thesis and field judgements, section-owns-figure allocation, display-item…
write-scientific-manuscript
Diagnose and repair the clarity and logic of manuscript prose, journal-agnostic. Use when a passage is technically correct but hard to follow: buried topic sentences, missing logical bridges, ambiguous referents, abstract noun chains, overloaded sentences, incomplete comparisons with no stated dataset or metric or…
paper-reviewer
Referee-side skill for Nature Portfolio manuscripts: write a referee report, inventory every ask and sub-ask in received comments, grade drafted replies, and test reply readability. Check methodology, statistics, reporting, reproducibility and data/code availability. Preserve referee wording, numbering and order…
figure-planner
Use when designing, restructuring, or auditing manuscript figures and you need to define one main claim per figure, assign panel roles, align legends with the text, or decide what belongs in main figures versus supplement.