protocols-io-mcp-server vs filesystem

Side-by-side comparison to help you pick between these two MCP servers.

	protocols-io-mcp-server by hqn21	filesystem by modelcontextprotocol
Stars	★ 16	★ 85,748
30d uses	—	—
Score	41	77
Official	—	✓
Categories	AI / LLM ToolsProductivityDeveloper Tools	File SystemDeveloper ToolsProductivity
Language	Python	TypeScript
Last commit	4 mo ago	this month

protocols-io-mcp-server · Summary

A functional MCP server enabling Claude Desktop to interact with protocols.io scientific protocols.

filesystem · Summary

A feature-rich MCP server for filesystem operations with dynamic directory access control.

protocols-io-mcp-server · Use cases

Scientists can retrieve detailed protocols without leaving their AI assistant
Research teams can create and manage protocols through conversational AI
Educational institutions can integrate protocol databases into AI workflows

filesystem · Use cases

Enable AI models to read and write project files during development
Allow Claude or other MCP clients to browse and analyze codebases
Provide secure sandboxed access to specific directories for content generation

protocols-io-mcp-server · Install

Installation

Quick Start with Docker

docker run -d -p 8000:8000 -e PROTOCOLS_IO_CLIENT_ID="your_client_id" -e PROTOCOLS_IO_CLIENT_SECRET="your_client_secret" -e PROTOCOLS_IO_MCP_BASE_URL="https://example.com" --name protocols-io-mcp --restart always ghcr.io/hqn21/protocols-io-mcp:latest

Install via pip

pip install protocols-io-mcp

Claude Desktop Integration

Add to your claude_desktop_config.json:

{
  "mcpServers": {
    "protocols-io": {
      "command": "protocols-io-mcp",
      "env": {
        "PROTOCOLS_IO_CLIENT_ACCESS_TOKEN": "your_client_access_token"
      }
    }
  }
}

filesystem · Install

Installation

Using NPX

{
  "mcpServers": {
    "filesystem": {
      "command": "npx",
      "args": [
        "-y",
        "@modelcontextprotocol/server-filesystem",
        "/path/to/allowed/directory"
      ]
    }
  }
}

Using Docker

{
  "mcpServers": {
    "filesystem": {
      "command": "docker",
      "args": [
        "run",
        "-i",
        "--rm",
        "--mount", "type=bind,src=/path/to/allowed/dir,dst=/projects/allowed/dir",
        "mcp/filesystem",
        "/projects"
      ]
    }
  }
}

VS Code Extension

Click the installation buttons in the README to install directly in VS Code.

Comparison generated from public README + GitHub signals. Last updated automatically.