MCP server for Galaxy bioinformatics platform - connect, execute tools, and manage workflows
MCP server for Galaxy bioinformatics platform - connect, execute tools, and manage workflows
This project provides a Model Context Protocol (MCP) server for interacting with the Galaxy bioinformatics platform. It enables AI assistants and other clients to connect to Galaxy instances, search and execute tools, manage workflows, and access other features of the Galaxy ecosystem.
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{
"mcpServers": {
"galaxy-mcp": {
"command": "uvx",
"args": ["galaxy-mcp"],
"env": {
"GALAXY_URL": "https://usegalaxy.org",
"GALAXY_API_KEY": "SECRETS"
}
}
}
}Configuration as documented by the project. Restart the client after saving.
| Variable | Description | Required |
|---|---|---|
| GALAXY_URL | Endpoint or connection string the server talks to. | Yes |
| GALAXY_API_KEY | Credential the server authenticates with. | Yes |
| GALAXY_MCP_PUBLIC_URL | Endpoint or connection string the server talks to. | Yes |
| GALAXY_MCP_SESSION_SECRET | Credential the server authenticates with. | Yes |
| GALAXY_SERVER | Configuration value read at startup. | Optional |
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