cxg-census-mcp
Gives Claude direct access to the CZ CELLxGENE Discover Census, a single-cell RNA-seq atlas covering millions of cells across hundreds of datasets. The server wraps 13 tools for querying cell counts, filtering by ontology terms (cell types via CL, tissues via UBERON, diseases via MONDO), aggregating gene expression, and exporting subsets. It handles ontology resolution through EBI's OLS4 API and includes tiered execution with cost caps to keep queries feasible. Every response includes dataset provenance and CC BY 4.0 attribution. Useful for exploratory analysis when you need to ask questions like "how does this gene's expression differ between healthy and diseased lung tissue" without writing SOMA queries by hand. Community project, unaffiliated with CZI, alpha stage but functional.
- tools
- 13
- transport
- STDIO
- last updated
- Apr 22, 2026
Tools
13 toolsPublic tool metadata for what this MCP can expose to an agent.
census_summaryWorkflow tool exposed by the server.
Workflow tool exposed by the server.
No parameter schema in public metadata yet.
get_census_versionsWorkflow tool exposed by the server.
Workflow tool exposed by the server.
No parameter schema in public metadata yet.
count_cellsWorkflow tool exposed by the server.
Workflow tool exposed by the server.
No parameter schema in public metadata yet.
list_datasetsWorkflow tool exposed by the server.
Workflow tool exposed by the server.
No parameter schema in public metadata yet.
gene_coverageWorkflow tool exposed by the server.
Workflow tool exposed by the server.
No parameter schema in public metadata yet.
aggregate_expressionWorkflow tool exposed by the server.
Workflow tool exposed by the server.
No parameter schema in public metadata yet.
preview_obsWorkflow tool exposed by the server.
Workflow tool exposed by the server.
No parameter schema in public metadata yet.
export_snippetWorkflow tool exposed by the server.
Workflow tool exposed by the server.
No parameter schema in public metadata yet.
get_server_limitsWorkflow tool exposed by the server.
Workflow tool exposed by the server.
No parameter schema in public metadata yet.
resolve_termInspection tool exposed by the server.
Inspection tool exposed by the server.
No parameter schema in public metadata yet.
expand_termInspection tool exposed by the server.
Inspection tool exposed by the server.
No parameter schema in public metadata yet.
term_definitionInspection tool exposed by the server.
Inspection tool exposed by the server.
No parameter schema in public metadata yet.
list_available_valuesInspection tool exposed by the server.
Inspection tool exposed by the server.
No parameter schema in public metadata yet.
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Details
- Repository
- github.com/maxmlang/cxg-census-mcp
- Website
- github.com/MaxMLang/cxg-census-mcp
- Package
cxg-census-mcp- Transport
- STDIO
- Registry
- MCP registry, active