Overview

ARK CLI is a terminal chat application that lets you explore biomedical knowledge graphs in natural language. It is the CLI companion to the ARK (Adaptive Retriever of Knowledge) research project from the Zitnik Lab at Harvard Medical School.

The key features are:

• Natural language: Ask questions about biomedical entities and relationships in plain English.
• Multiple knowledge graphs: Ships with PrimeKG, AfriMedKG, and OptimusKG out of the box.
• AI-powered: Uses an Anthropic Claude agent with graph traversal tools to answer questions.
• Extensible: Bring your own knowledge graph with Parquet files and a simple JSON manifest.
• Fast: Queries on-disk Parquet files via DuckDB without needing a database server.

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