TogoMCP
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TDQS
Scored across 29 tools
Most tools are cleanly separated by database/resource prefix (uniprot, pubchem, pdb, chembl, ncbi, togoid, togovar) and by action. The main ambiguity is the three ChEMBL search tools and the two TogoID relation tools, but their descriptions explicitly distinguish exact-name lookup, target lookup, and cross-entity lookup.
The set mixes snake_case (search_uniprot_entity, get_MIE_file, ncbi_esearch) with camelCase (togoid_getAllRelation, togoid_convertId) and inconsistent verb styles (ncbi_esearch vs. ncbi_list_databases vs. togoid_getRelation). Each subsystem is internally consistent, but there is no single predictable pattern across the whole server.
At 29 tools, the server is above the comfortable range, but the broad multi-database scope (RDF, ChEMBL, NCBI, TogoID, TogoVar) justifies much of the surface. Some TogoID metadata tools and the mandatory usage-guide tool inflate the count and could likely be consolidated.
The set covers a full read-only workflow: discover endpoints, read MIE schemas, run SPARQL, resolve entities through database-specific searches, convert IDs, and fetch NCBI/TogoVar records. Minor gaps exist — e.g., no direct search wrapper for RDF databases like Ensembl or GO — but run_sparql and TogoID provide workarounds.