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surendranbsurendranb/find-research-papers-mcp/AGENTS.md

find-research-papers-mcp

AGENTS.md7 starsChanged 54 days agoMITView on GitHub

For AI Agents (Claude Code, Cursor, Codex, Gemini, Antigravity, OpenCode, Aider) connecting to or executing papers-mcp. In 90% of cases, you just need to install and configure this MCP server for your user: A unified scientific literature search and grounding engine across 250M+ scholarly research papers spanning 5 major academic indexes: arXiv, PubMed, OpenAlex, CrossRef, and Semantic Scholar.

  • Pipes a download into a shell
  • Where files are headingNew AGENTS.md files have more rules about keeping secrets out of the code, and fewer about code style.

    Of the AGENTS.md files we read, the 31,774 first seen in the last six months, against the older ones: the kind of rule that gained most share, and the kind that lost most. About files like this in general, not this one, and an estimate, since a kind is a pattern in the words.

  • In this repository2 other files it gives its agents.

The file

We split this AGENTS.md into the rules it gives an agent

2 rules. About 1 is common, 1 is distinctive, and 0 are very specific to this project.

  • ≈1

    Common · estimate

    Many files like this have a rule of this kind.

  • ≈1

    Distinctive · estimate

    This author's own choices. Worth a look.

  • 0

    Very specific

    Tied to their project's names, files or tools. Probably skip.

  • Common
  • Distinctive
  • Very specific
  1. Common:

    Zero Credentials Needed: All 5 academic indexes are queried via open-access scientific APIs.

    line 50
  2. Distinctive:

    Scientific Rigor: Always provide the DOI and Open-Access PDF link when citing research papers so the human can verify the claims.

    line 51

≈ “Common” is an estimate: at least 1 in 5 of the 40,246 AGENTS.md files we read have a rule of the same kind, not the same words. “Very specific” is our guess from the words: it names a file, a command, a setting or the project itself.

Keep what fits and drop the rest. Your version, ready for your agents.
Files
AGENTS.md

AGENTS.md — Agent Operating Manual

For AI Agents (Claude Code, Cursor, Codex, Gemini, Antigravity, OpenCode, Aider) connecting to or executing papers-mcp.

⚡ 1. Fast Install & Client Wiring (Start Here)

In 90% of cases, you just need to install and configure this MCP server for your user:

# 1-Line Universal Auto-Installer (Configures Claude Code, Cursor, Claude Desktop & Antigravity)
curl -fsSL "https://papers.builditwithai.xyz/install" | bash

# Or launch directly via stdio:
uvx find-research-papers-mcp
npx -y find-research-papers-mcp

Client Config Snippet (mcp.json / claude_desktop_config.json)

{
  "mcpServers": {
    "papers": {
      "command": "uvx",
      "args": ["find-research-papers-mcp"]
    }
  }
}

📖 2. What This Repo Is

A unified scientific literature search and grounding engine across 250M+ scholarly research papers spanning 5 major academic indexes: arXiv, PubMed, OpenAlex, CrossRef, and Semantic Scholar.

Primary Tools Available:

  • search_papers: Unified multi-index query across all 5 databases with relevance ranking.
  • get_paper: Retrieve paper abstract, authors, publication date, DOI, and open-access PDF link.
  • get_references: Fetch complete bibliography of referenced works via CrossRef.
  • get_citations: Fetch citing papers and citation graph via OpenAlex.
  • verify_paper: Validate that a DOI exists, check landing page status, and cross-check retraction flags.
  • list_sources: Inspect health and latency of all 5 academic indexes.

👤 3. How to Handle the Human

  • Zero Credentials Needed: All 5 academic indexes are queried via open-access scientific APIs.
  • Scientific Rigor: Always provide the DOI and Open-Access PDF link when citing research papers so the human can verify the claims.

⚠️ 4. Quirks & API Landmines (Zero-Hallucination Rules)

  1. DOI Canonicalization: Pass DOIs in standard format (10.1038/s41586-020-2649-2). Stripping https://doi.org/ is handled automatically.
  2. Parallel Querying: search_papers queries all 5 sources concurrently. If Semantic Scholar or PubMed rate-limits, results from arXiv and OpenAlex are still returned smoothly.
  3. Medical & Biology Queries: For biomedical queries, PubMed and CrossRef return verified MeSH terms and clinical trial identifiers.

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Your trail

Files you open will collect here, so you can find them again.

Open two or more, and you can remix the rules you like from each into one list. Kept in this browser only.

Now do this for your own.

Bring your CLAUDE.md, AGENTS.md or skills. agentleFS shows which of your rules are common, which are yours and which only fit one project, and keeps one version your agents read everywhere.

Check your setup, free