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academic-literature-search

academic-literature-search is a skill for Claude Code, Codex from beita6969/ScienceClaw. It costs 4 tokens per session (4,381 once invoked), scanned A, original, MIT.

A search and reference-management guide for finding academic papers in services such as PubMed, bioRxiv, and arXiv. PubMed indexes biomedical research, while bioRxiv and arXiv host research papers shared before formal journal publication.

In plain words
What is it for?
Use it to find papers, retrieve citation details, format references, and process citations in a document.
Why use it?
It routes academic searches and citation work through the appropriate sources and helps prevent made-up or inconsistent references.

Skill for Claude CodeCodex

Written for no agent in particular: nothing here depends on one.

not rated 1.0krepo +2 3d ago A scan SkillSpector: pass 4 tokens original MIT

Good fit Use it to find papers, retrieve citation details, format references, and process citations in a document.

Compare 6 skills from other repositories ↓
Install with agentmods
npx agentmods add skills/beita6969/scienceclaw/academic-literature-search
View source ↗ beita6969/ScienceClaw scienceclaw.science
About the project

ScienceClaw is an agent system for scientific work that completes tasks as typed, executable workflows and turns replay-verified improvements into reusable skills and operators. It is intended for AI-assisted research across natural and social science disciplines. The catalogue entries are its skills and instruction for use with the system.

beita6969/ScienceClaw · 1,028 stars · on GitHub · scienceclaw.science

Install

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.

Any agent
npx skills add beita6969/ScienceClaw --skill academic-literature-search
Clone the repo
git clone --depth 1 https://github.com/beita6969/ScienceClaw

Made for: Claude Code, Codex.

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 academic-literature-search

README.md
[![agentmods](https://agentmods.dev/badge/skills/beita6969/scienceclaw/academic-literature-search/github.svg)](https://agentmods.dev/skills/beita6969/scienceclaw/academic-literature-search)
Your own site
<a href="https://agentmods.dev/skills/beita6969/scienceclaw/academic-literature-search"><img src="https://agentmods.dev/badge/skills/beita6969/scienceclaw/academic-literature-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.

agentmods 80×15 button for academic-literature-search

Your own site · 80×15
<a href="https://agentmods.dev/skills/beita6969/scienceclaw/academic-literature-search"><img src="https://agentmods.dev/badge/skills/beita6969/scienceclaw/academic-literature-search.svg" alt="Reviewed on agentmods" width="80" height="20"></a>
Per session 4 Skills are progressive disclosure: only the name and description are preloaded; the body loads when the skill is used.
When invoked 4,381 The whole file, excluding the scripts and references it only reads on demand.
Security scan A 1 finding. A grade says what 26 rules found in the file — not that it is safe. Third-party audits
  • NVIDIA SkillSpector pass 7 Sept 2026
How audits are shown
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 $0.00004 $0.04381
Opus 5.5 $0.00002 $0.01752
Sonnet 5.5 $0.00001 $0.00876
Haiku 4.5 $0.00000 $0.00438

Measured 2mo ago against content hash 71c34d958bc4, method: parsed. Prices are Anthropic first-party input rates as of 2026-10-07, from the pricing page.

Security

Grade A, and why

academic-literature-search scanned grade A with 1 finding 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.

Makes network callslowCapability

Not a fault in itself. Listed so you know the mod talks to something, and to what.

Uses stdlib only (`urllib.request` + `xml.etree.ElementTree`), no external dependencies:
Origin

Copies of this mod

2 near-identical copies found in the catalogue:

skills/academic-literature-search/SKILL.md · 421 lines

How it starts

The opening of the file, as written. The whole thing — 421 lines — stays where its author put it; the contents beside it link to each section on GitHub.

Use this skill when the user asks to search for academic papers, retrieve literature, generate citations, format references, or any task involving PubMed, bioRxiv, arXiv, or academic reference management. Trigger keywords: "搜文献", "检索", "找论文", "参考文献", "引用", "citation", "search papers", "PubMed", "bioRxiv", "arXiv", "GB/T 7714", "PMID", "DOI", "批量引用".

Core Principles

  1. MCP first, Python second: PubMed operations → MCP tools (zero code). Python only for arXiv, GB/T 7714 formatting, and citation post-processing.
  2. Code-driven citations: Citation formatting, validation, deduplication, renumbering — ALL via Python code. NEVER fabricate PMIDs, DOIs, author names, or journal names.
  3. GB/T 7714-2015 sequential numbering: [1][2][3] in-text, references numbered by order of first appearance.
  4. Journal name consistency: Use full journal names throughout (NOT ISO abbreviations). E.g., Nature Medicine not Nat Med. If MCP returns abbreviated names, expand them; if expansion is uncertain, use the name as returned.

Tool Routing Decision Table

操作 用什么 为什么
PubMed 关键词搜索 MCP pubmed_search_articles 原生日期/类型过滤/排序，Agent 零代码
PMID 批量获取详情 MCP pubmed_fetch_contents 4种详情级别，一次200个，含 MeSH
相似论文发现 MCP pubmed_article_connections (similar) 直接调用，返回结构化数据
被引论文发现 MCP pubmed_article_connections (citedin) 同上
论文参考文献（它引了谁） MCP pubmed_article_connections (references) MCP 独有，ELink 不支持
RIS/BibTeX 导出 MCP pubmed_article_connections (citation_formats) 内置格式化
bioRxiv/medRxiv 搜索 MCP pubmed_search_articles + journal filter queryTerm 加 biorxiv[journal]
arXiv 搜索 Python MCP 不覆盖 arXiv
GB/T 7714-2015 格式化 Python MCP 无国标格式
引用后处理/去重/编号 Python MCP 不覆盖

MCP Operations (PubMed — 主力)

1. 关键词搜索

Tool: pubmed_search_articles
Parameters:
  queryTerm: "large language model bioinformatics"
  maxResults: 20
  sortBy: "relevance"                       ← 或 "pub_date"
  fetchBriefSummaries: 10                   ← 返回前10篇摘要
  dateRange:                                ← 可选
    minDate: "2022"
    maxDate: "2026"
    dateType: "pdat"
  filterByPublicationTypes: ["Review"]      ← 可选

Read the full file on GitHub · 421 lines

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 · 421 lines · 4 tokens per session scan A 71c34d958bc4

Subscribe to this mod's changes

academic-literature-search is a skill published in the GitHub repository beita6969/ScienceClaw (1,028 stars, last pushed 3d ago), licensed MIT. It adds 4 tokens to every session and 4,381 once invoked, about $0.0000 per session on Opus 5.5. A static security scan graded it A with 1 finding (makes network calls). No closer match exists in the catalogue, so it is treated as the original; first seen 2026-08-30.

LLMResearchaiai-agentbioinformaticsliterature-reviewmcp
Related

academic-literature-search compared with skills from other repositories

academic-literature-search next to 6 skills from other repositories
ModTypeStarsLast pushLicenceScanTokensWorks with
academic-literature-searchbeita6969/ScienceClawSkill1.0k3d agoMITA4Claude Code, Codex
biopythonsynthetic-sciences/openscienceSkill4.4kyesterdayApache-2.0A76Claude Code, Codex
scanpysynthetic-sciences/openscienceSkill4.4kyesterdayApache-2.0A68Claude Code, Codex
structure-predictionsynthetic-sciences/openscienceSkill4.4kyesterdayApache-2.0A42Claude Code, Codex
paper-readerpoco-ai/AgenteroSkill2.4ktodayMITA43Claude Code, Codex
vault-normalizerpoco-ai/AgenteroSkill2.4ktodayMITA57Claude Code, Codex
acdemic-drawingpoco-ai/AgenteroSkill2.4ktodayMITA30Claude Code, Codex