Jackkuo666 Biorxiv MCP Server

🚀 bioRxiv MCP Server

🔍 This server allows AI assistants to search for and access bioRxiv papers through a simple MCP interface.

The bioRxiv MCP Server bridges the gap between AI models and the bioRxiv preprint repository, enabling programmatic search and access via the Model Context Protocol (MCP). It empowers AI to quickly retrieve biological preprints and their metadata.

🤝 Contribute • 📝 Report Issues

✨ Features

• 🔎 Paper Search: Search for bioRxiv papers using keywords or advanced queries ✅
• 🚀 Efficient Retrieval: Quickly access paper metadata ✅
• 📊 Metadata Access: Obtain detailed information about specific papers ✅
• 📊 Research Support: Facilitate research and analysis in biological sciences ✅
• 📄 Paper Access: Download and read paper content 📝
• 📋 Paper List: View all downloaded papers 📝
• 🗃️ Local Storage: Save papers locally for faster access 📝
• 📝 Research Prompts: A set of dedicated prompts for paper analysis 📝

🚀 Quick Start

Prerequisites

• Python 3.10+
• FastMCP library

Installation Steps

1. Clone the repository:

   git clone https://github.com/JackKuo666/bioRxiv-MCP-Server.git
   cd bioRxiv-MCP-Server
   

2. Install dependencies:

   pip install -r requirements.txt
   

Installation via Smithery

To automatically install the bioRxiv server for Claude Desktop, you can use Smithery:

claude

npx -y @smithery/cli@latest install @JackKuo666/biorxiv-mcp-server --client claude --config "{}"

Cursor

Paste the following into "Cursor Settings" → "MCP" → "Add New Server" in the settings:

• Mac/Linux

npx -y @smithery/cli@latest run @JackKuo666/biorxiv-mcp-server --client cursor --config "{}" 

Windsurf

npx -y @smithery/cli@latest install @JackKuo666/biorxiv-mcp-server --client windsurf --config "{}"

CLine

npx -y @smithery/cli@latest install @JackKuo666/biorxiv-mcp-server --client cline --config "{}"

Usage with Claude Desktop

Add the following configuration to claude_desktop_config.json:

(Mac OS)

{
  "project": {
    "name": "bioRxiv-MCP-Server",
    "description": "A server for accessing bioRxiv papers via MCP protocol."
  }
}

💻 Usage Examples

Basic Usage

• Start the server: Run python main.py.
• Search for papers: Use the provided API or command-line tools to search.
• Access papers: Retrieve the content of downloaded papers through the MCP interface.

🔧 Known Issues

• Ensure that you have installed the latest versions of Python and the FastMCP library.
• In some network environments, you may need to configure a proxy server.

🤝 Contribute

Contributions are welcome! Feel free to submit a Pull Request.

⚠️ Important Note

This tool is for research purposes only. Please comply with bioRxiv's terms of service and use this tool responsibly.