What is the key difference between Noodle Biomedical Literature Discovery MCP and Repo Graph?

Noodle Biomedical Literature Discovery MCP belongs to the Biology & Bioinformatics category with cloud HTTP/SSE execution, while Repo Graph belongs to the Biology & Bioinformatics category with local stdio execution.

How do I install Noodle Biomedical Literature Discovery MCP or Repo Graph in Claude Desktop or Cursor?

Copy the mcpServers JSON configuration snippet provided on this page into your claude_desktop_config.json or ~/.cursor/mcp.json file and restart your AI client.

Are Noodle Biomedical Literature Discovery MCP and Repo Graph free or paid?

Noodle Biomedical Literature Discovery MCP operates under a Free / Open Source model (No auth required). Repo Graph operates under a Free / Open Source model (No auth required).

Which MCP server has more tools and community activity?

Noodle Biomedical Literature Discovery MCP lists 6 tools with 2 views and 0 GitHub stars. Repo Graph lists 6 tools with 2 views and 14 GitHub stars.

Can I use both Noodle Biomedical Literature Discovery MCP and Repo Graph together in the same MCP host?

Yes! MCP hosts like Claude Desktop, Cursor, Windsurf, Cline, and VS Code support configuring multiple servers under the mcpServers object simultaneously.

Noodle Biomedical Lit… vs Repo Graph

Noodle Biomedical Lit… vs Repo Graph | AllMCPs

Feature & Specification Comparison

Specification	N Noodle Biomedical Literature Discovery MCP VerifiedBiology & Bioinformatics	Repo Graph James-Chahwan Biology & Bioinformatics
Summary	Official public, read-only Model Context Protocol server from Helena Bioinformatics for biomedical literature discovery. Agents can search PubMed and scholarly research, resolve PMID, DOI, and PMCID identifiers, inspect publication metadata, find related papers, traverse bounded citation graphs, explore semantic literature neighborhoods, and check corpus coverage. Use the hosted Streamable HTTP endpoint https://api.helena.bio/noodle/v1/mcp; no npm or npx package is required.	Structural graph map of any codebase for AI coding assistants. Scans entities, relationships, and feature flows across 13 languages so LLMs navigate by structure instead of grepping through everything.
Category & Scope	Biology & Bioinformatics	Biology & Bioinformatics
Quality signal	75/100 (Great)	57/100 (Good)
Transport Protocol	Remote HTTP/SSE	Local Subprocess (stdio)
Auth Requirement	No auth required	No auth required
Pricing Model	Free / Open Source	Free / Open Source
Required Env Vars	None required	`REPO_PATH`
Compatible Clients	Claude DesktopCursorWindsurfClineVS Code	Claude DesktopCursorWindsurfClineVS Code
Install path signal	`Remote (HTTP/SSE) · high`	`uvx · high`
Engagement & Health	2 views 0 copies 0 upvotes 0 stars	2 views 0 copies 0 upvotes 14 stars
Verified / Official	Yes (Verified)	Community Listing
Open full listing	View Noodle Biomedical Literature Discovery MCP Listing	View Repo Graph Listing

Ready-to-Paste Client Configurations

Paste either (or both) of these JSON server blocks into your client config file (e.g. claude_desktop_config.json or ~/.cursor/mcp.json).

Noodle Biomedical Literature Discovery MCP Configuration

mcpServers (Claude Desktop / Cursor)

{
  "mcpServers": {
    "noodle-biomedical-literature-discovery-mcp": {
      "url": "https://api.helena.bio/noodle/v1/mcp"
    }
  }
}

Repo Graph Configuration

mcpServers (Claude Desktop / Cursor)

{
  "mcpServers": {
    "james-chahwan-repo-graph": {
      "command": "uvx",
      "args": [
        "mcp-repo-graph"
      ],
      "env": {
        "REPO_PATH": "YOUR_REPO_PATH_HERE"
      }
    }
  }
}

Noodle Biomedical Literature Discovery MCP vs Repo Graph

At a Glance & Executive Verdict

Which MCP Server Should You Choose?

Choose Noodle Biomedical Literature Discovery MCP when:

Choose Repo Graph when:

Feature & Specification Comparison

Tools & Capabilities Breakdown

Noodle Biomedical Literature Discovery MCP Tools (6)

Repo Graph Tools (6)

Ready-to-Paste Client Configurations

Frequently Asked Questions

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