PubMed

Use PubMed tools with Agno agents.

Enable Agno agents real-time access to the National Library of Medicine’s database, allowing them to base their responses on peer-reviewed clinical studies, systematic reviews, and experimental research through Pubmed tools.

from agno.agent import Agent
from agno.tools.pubmed import PubmedTools

# ---------------------------------------------------------------------------
# Create Agent
# ---------------------------------------------------------------------------

# Example 1: Enable all PubMed functions
agent_all = Agent(
    tools=[
        PubmedTools(
            all=True,  # Enable all PubMed search functions
        )
    ],
    markdown=True,
)

# Example 2: Enable specific PubMed functions only
agent_specific = Agent(
    tools=[
        PubmedTools(
            enable_search_pubmed=True,  # Only enable the main search function
        )
    ],
    markdown=True,
)

# Example 3: Default behavior with search enabled
agent = Agent(
    tools=[
        PubmedTools(
            enable_search_pubmed=True,
        )
    ],
    markdown=True,
)

# Example usage with all functions enabled

# ---------------------------------------------------------------------------
# Run Agent
# ---------------------------------------------------------------------------
if __name__ == "__main__":
    print("=== Example 1: Using all PubMed functions ===")
    agent_all.print_response(
        "Tell me about ulcerative colitis and find the latest research."
    )

    # Example usage with specific functions only
    print("\n=== Example 2: Using specific PubMed functions (search only) ===")
    agent_specific.print_response("Search for recent studies on diabetes treatment.")

    # Example usage with default configuration
    print("\n=== Example 3: Default PubMed agent usage ===")
    agent.print_response("Tell me about ulcerative colitis.")

    agent.print_response("Find research papers on machine learning in healthcare.")

Run the Example

# Clone and setup repo
git clone https://github.com/agno-agi/agno.git
cd agno/cookbook/91_tools

# Create and activate virtual environment
./scripts/demo_setup.sh
source .venvs/demo/bin/activate

python pubmed_tools.py

For details, see PubMed cookbook.