propaths-mcp
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TDQS
Scored across 11 tools
Each tool has a clearly distinct purpose: search_proteins for finding proteins, get_protein for overview, get_interaction for deep detail, list_interactions for filtered lists, get_pathway/get_pathway_tree for pathway navigation, export_network for output, and describe_schema for guidance. Even closely related tools like get_interaction_between and get_interaction are differentiated by their argument (pair vs. ID) and described usage.
All tool names follow a consistent get_/list_/search_/export_/describe_ + noun pattern, all in snake_case. The verb clearly indicates the action (get for single resource, list for collection, search for prefix query, export for output, describe for metadata) and the noun identifies the resource (protein, interaction, pathway, network, schema).
11 tools is well within the recommended 3-15 range and each tool addresses a specific need for exploring a biological interaction graph. The count feels neither thin nor bloated—there are distinct entry points, filtering utilities, vocabulary support, and export functionality without redundant overlaps.
The tool surface covers the full read-only lifecycle of the domain: find a protein (search_proteins), get overview (get_protein), drill into details (get_interaction), filter (list_interactions), navigate pathways (get_pathway, get_pathway_tree), discover vocabularies (list_interaction_types), get curated highlights (get_highlights), and export (export_network). The inclusion of describe_schema ensures agents can self-orient, and there are no obvious dead ends—every tool's output either stands alone or provides IDs that are directly consumed by other tools.