UCSC Genome Browser MCP Server

Describes the environment variables required to run the server.

Name	Required	Description	Default
No arguments

Server capabilities have not been inspected yet.

Functions exposed to the LLM to take actions

Name	Description
find_genomeB	Search for a genome in the UCSC browser using a search string. Supports advanced search with +word (force inclusion), -word (exclusion), and word* (wildcard).
list_public_hubsB	List all available public track hubs in the UCSC Genome Browser.
list_ucsc_genomesA	List all UCSC Genome Browser database genomes available on the database host.
list_genark_genomesB	List UCSC Genome Browser database genomes from assembly hub host (GenArk). Can also test for existence of a specific genome.
list_hub_genomesC	List all genomes available in a specified track or assembly hub.
list_filesB	List download files available for a specified UCSC genome assembly.
list_tracksC	List all data tracks available in a specified hub or UCSC database genome.
list_chromosomesB	List chromosomes in an assembly hub, track hub, or UCSC database genome. Optionally filter by specific track.
list_schemaB	List the schema (field definitions) for a specified data track.
get_sequenceB	Retrieve DNA sequence from a specified genome assembly. Can retrieve entire chromosome or specific coordinates.
get_track_dataB	Retrieve data from a specified track in a hub or UCSC database genome. Can be filtered by chromosome and coordinates.
search_genomeC	Search for matches within a UCSC Genome Browser genome assembly across tracks, help docs, and public hubs.

Interactive templates invoked by user choice

Name	Description
No prompts

Contextual data attached and managed by the client

Name	Description
No resources

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