Biorxiv

🚀 bioRxiv MCP Server

This server allows AI assistants to search for and access bioRxiv papers through a simple MCP interface. The bioRxiv MCP Server provides a bridge for AI models to connect to the bioRxiv preprint repository via the Model Context Protocol (MCP). It enables AI to quickly search for biological preprints and programmatically obtain their metadata.

🤝 Contribute • 📝 Report Bugs

✨ 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

1. Clone the repository:

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

2. Install the required dependencies:

   pip install -r requirements.txt
   

Installation via Smithery

To automatically install the bioRxiv Server for Claude Desktop, use Smithery:

claude

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

Cursor

Add a new server in Settings → Cursor Settings → MCP:

• 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 "{}"

When using Claude Desktop, add the following configuration to claude_desktop_config.json:

(Mac OS)

{
  "mcpServers": {
    "biorxiv": {
      "command": "python",
      "args": ["-m", "biorxiv-mcp-server"]
      }
    }
}

(Windows)

{
  "mcpServers": {
    "biorxiv": {
      "command": "python",
      "args": ["-m", "bioRxiv_web_search"]
      }
    }
}

📥 Post - Installation Setup

Ensure that Python is added to the system path.

💻 Usage Examples

Basic Usage

Run in the terminal:

python -m biorxiv_mcp_server

Or

python -m bioRxiv_web_search

🔧 Technical Details

Dependencies

• Python 3.10+
• FastMCP
• asyncio
• logging

🤝 Contribute

Contributions are welcome! Please feel free to submit pull requests.

📄 License

This project is licensed under the MIT License.

⚠️ Important Note

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