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Scored across 43 tools
Most tools follow a clear entity+action split (gene_/variant_/drug_/disease_/article_/trial_/geo_/sra_/genbank_/patent_ + search/get), and descriptions actively steer agents apart (e.g. drug_search explicitly says it is not a target search, use gene_drugs; gene_get vs ensembl_lookup is carved out). A few overlaps remain that will cause misselection: five routes into clinical trials (drug_trials, gene_trials, variant_trials, disease_trials, trial_search), preprint_fulltext versus article_get on a preprint DOI, and discover versus the per-entity *_search tools. Batch_get also shadows every get tool.
The dominant convention is consistent snake_case entity_verb (gene_search/gene_get, variant_trials, article_get, geo_search, patent_get), which makes the set predictable. Deviations exist: pdb is a bare noun doing search/get/download in one tool, discover and batch_get are generic verbs without an entity, and journal_metrics/gene_enrich are noun_verb or verb-only rather than entity_action.
43 tools is heavy, but the breadth is genuine (genes, variants, drugs, diseases, trials, literature, patents, PDB, GEO/SRA/GenBank, GTEx, Ensembl, config), and most domains are well-scoped search/get pairs that earn their place. Still, several convenience wrappers (gene_articles, gene_diseases, gene_drugs, gene_trials, batch_get) could be folded into generic search tools, so the surface feels larger than strictly necessary.
Coverage of the bioinformatics domain is broad and lifecycle-complete for most entities: search+get for genes, variants, drugs, diseases, trials, articles, patents, sequences, structures, with rich cross-linking hints (sra→sra_get, geo→sra, genbank_genes→gene_search). Minor gaps: Reactome enrichment is the only pathway tool and has no reverse lookup, there is no protein/UniProt target tool separate from PDB, and no batch/list-upload path except the generic batch_get and gene_enrich gene lists.
