osdr_mcp_server
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This repository demonstrates the integration of MCP agents with custom tools for interacting with NASA’s Open Science Data Repository (OSDR).
🧠 OSDR MCP Server + Agents
This repo demonstrates how to integrate MCP agents with custom tools for interacting with NASA’s Open Science Data Repository (OSDR). It includes working examples of agent workflows that fetch, analyze, and summarize biological data using the Model Context Protocol (MCP).
📦 What’s Inside
osdr_mcp/
Custom MCP server exposing tools for interacting with OSDR data:
osdr_fetch_metadata: Fetches metadata for a given OSDR datasetosdr_find_by_organism: Filters studies by organism- Additional tools (e.g. RNA analysis) live in
osdr_viz_tools
first_example/
A simple agent that uses two official MCP servers:
mcp-server-fetch(headless browser)mcp-server-filesystem
This agent gathers information and generates a tweet-sized summary.
second_example/
Similar to first_example but connects to a custom MCP server defined in osdr_mcp/main_simple.py. Demonstrates how to plug in domain-specific tools like OSDR metadata fetchers.
third_example/
A full multi-agent workflow:
- Fetch Agent – Grabs OSD study metadata
- Quant Analysis Agent – Downloads RNA count data and creates a bar plot
- Summary Writer Agent – Generates a markdown report summarizing the analysis
Uses custom MCP servers:
osdr_data_fetchosdr_viz_tools
⚙️ Configuration
The cp_agent.config.yaml file controls:
- LLM backend (e.g. Ollama, OpenAI)
- MCP server connections
- Tool availability
- System prompts / metadata
🚀 Getting Started
- Clone this repo
- Install dependencies:
pip install -r requirements.txt - Run an example:
python first_example/main.py
Or launch the MCP server directly:
python osdr_mcp/main_simple.py
🧩 Integration Notes
This architecture is built for flexibility. You can toggle between document Q&A, RAG search, or custom analysis tools. A mode switch or UI toggle is ideal for user-facing integration. Support for Milvus-based RAG via MCP is on the roadmap.
