This server wraps the Galaxy bioinformatics platform API through BioBlend, letting you search and execute Galaxy tools, manage workflows from the Interactive Workflow Composer, and handle histories and datasets. It ships with both stdio and HTTP transports, supports OAuth login for browser based flows, and can connect to any Galaxy instance with a URL and API key. Reach for it when you need to automate bioinformatics pipelines or want an AI assistant to interact with Galaxy directly. The Python implementation is production ready with comprehensive tests, while a TypeScript version is in progress. Sessions isolate credentials per user when running over HTTP, making it workable for multi tenant deployments.
claude mcp add --transport stdio galaxyproject-galaxy-mcp uvx galaxy-mcp