tooluniverse 1.0.6__py3-none-any.whl → 1.0.8__py3-none-any.whl

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  1. tooluniverse/__init__.py +56 -10
  2. tooluniverse/admetai_tool.py +8 -4
  3. tooluniverse/agentic_tool.py +40 -4
  4. tooluniverse/arxiv_tool.py +2 -6
  5. tooluniverse/base_tool.py +210 -25
  6. tooluniverse/biogrid_tool.py +118 -0
  7. tooluniverse/biorxiv_tool.py +35 -16
  8. tooluniverse/build_optimizer.py +87 -0
  9. tooluniverse/cache/__init__.py +3 -0
  10. tooluniverse/cache/memory_cache.py +99 -0
  11. tooluniverse/cache/result_cache_manager.py +235 -0
  12. tooluniverse/cache/sqlite_backend.py +257 -0
  13. tooluniverse/cellosaurus_tool.py +1332 -0
  14. tooluniverse/clinvar_tool.py +90 -0
  15. tooluniverse/compose_scripts/enhanced_multi_agent_literature_search.py +310 -0
  16. tooluniverse/compose_scripts/multi_agent_literature_search.py +794 -0
  17. tooluniverse/compose_scripts/tool_graph_generation.py +68 -35
  18. tooluniverse/compose_scripts/tool_metadata_generator.py +205 -105
  19. tooluniverse/compose_tool.py +93 -8
  20. tooluniverse/core_tool.py +46 -44
  21. tooluniverse/crossref_tool.py +89 -4
  22. tooluniverse/custom_tool.py +28 -0
  23. tooluniverse/data/agentic_tools.json +1271 -1179
  24. tooluniverse/data/alphafold_tools.json +356 -105
  25. tooluniverse/data/arxiv_tools.json +85 -81
  26. tooluniverse/data/biorxiv_tools.json +69 -64
  27. tooluniverse/data/cellosaurus_tools.json +260 -0
  28. tooluniverse/data/chembl_tools.json +27 -12
  29. tooluniverse/data/clinicaltrials_gov_tools.json +377 -302
  30. tooluniverse/data/compose_tools.json +123 -16
  31. tooluniverse/data/core_tools.json +104 -99
  32. tooluniverse/data/crossref_tools.json +131 -63
  33. tooluniverse/data/dailymed_tools.json +17 -3
  34. tooluniverse/data/dataset_tools.json +1031 -588
  35. tooluniverse/data/dblp_tools.json +135 -64
  36. tooluniverse/data/disease_target_score_tools.json +20 -10
  37. tooluniverse/data/doaj_tools.json +131 -87
  38. tooluniverse/data/drug_discovery_agents.json +292 -0
  39. tooluniverse/data/embedding_tools.json +362 -299
  40. tooluniverse/data/enrichr_tools.json +34 -27
  41. tooluniverse/data/europe_pmc_tools.json +107 -16
  42. tooluniverse/data/fatcat_tools.json +71 -66
  43. tooluniverse/data/fda_drug_adverse_event_tools.json +1061 -445
  44. tooluniverse/data/fda_drug_labeling_tools.json +6858 -6901
  45. tooluniverse/data/finder_tools.json +32 -37
  46. tooluniverse/data/gene_ontology_tools.json +19 -7
  47. tooluniverse/data/genomics_tools.json +174 -0
  48. tooluniverse/data/geo_tools.json +86 -0
  49. tooluniverse/data/gwas_tools.json +1720 -959
  50. tooluniverse/data/hal_tools.json +69 -64
  51. tooluniverse/data/hpa_tools.json +53 -14
  52. tooluniverse/data/humanbase_tools.json +51 -43
  53. tooluniverse/data/idmap_tools.json +76 -70
  54. tooluniverse/data/literature_search_tools.json +306 -0
  55. tooluniverse/data/markitdown_tools.json +51 -0
  56. tooluniverse/data/mcp_client_tools_example.json +122 -107
  57. tooluniverse/data/medlineplus_tools.json +50 -10
  58. tooluniverse/data/medrxiv_tools.json +69 -64
  59. tooluniverse/data/molecule_2d_tools.json +134 -0
  60. tooluniverse/data/molecule_3d_tools.json +164 -0
  61. tooluniverse/data/monarch_tools.json +112 -110
  62. tooluniverse/data/odphp_tools.json +389 -119
  63. tooluniverse/data/openaire_tools.json +89 -79
  64. tooluniverse/data/openalex_tools.json +96 -31
  65. tooluniverse/data/opentarget_tools.json +1457 -1372
  66. tooluniverse/data/osf_preprints_tools.json +77 -73
  67. tooluniverse/data/packages/bioinformatics_core_tools.json +40 -10
  68. tooluniverse/data/packages/cheminformatics_tools.json +20 -5
  69. tooluniverse/data/packages/genomics_tools.json +36 -9
  70. tooluniverse/data/packages/machine_learning_tools.json +36 -9
  71. tooluniverse/data/packages/scientific_computing_tools.json +20 -5
  72. tooluniverse/data/packages/single_cell_tools.json +20 -5
  73. tooluniverse/data/packages/structural_biology_tools.json +16 -4
  74. tooluniverse/data/packages/visualization_tools.json +20 -5
  75. tooluniverse/data/pmc_tools.json +108 -103
  76. tooluniverse/data/ppi_tools.json +139 -0
  77. tooluniverse/data/protein_structure_3d_tools.json +138 -0
  78. tooluniverse/data/pubchem_tools.json +37 -12
  79. tooluniverse/data/pubmed_tools.json +124 -58
  80. tooluniverse/data/pubtator_tools.json +68 -60
  81. tooluniverse/data/rcsb_pdb_tools.json +1532 -1221
  82. tooluniverse/data/semantic_scholar_tools.json +54 -22
  83. tooluniverse/data/special_tools.json +8 -6
  84. tooluniverse/data/tool_composition_tools.json +112 -82
  85. tooluniverse/data/unified_guideline_tools.json +909 -0
  86. tooluniverse/data/url_fetch_tools.json +102 -82
  87. tooluniverse/data/uspto_tools.json +49 -30
  88. tooluniverse/data/wikidata_sparql_tools.json +42 -39
  89. tooluniverse/data/xml_tools.json +3274 -3113
  90. tooluniverse/data/zenodo_tools.json +83 -76
  91. tooluniverse/dblp_tool.py +76 -6
  92. tooluniverse/dbsnp_tool.py +71 -0
  93. tooluniverse/default_config.py +19 -0
  94. tooluniverse/doaj_tool.py +76 -17
  95. tooluniverse/doctor.py +48 -0
  96. tooluniverse/ensembl_tool.py +61 -0
  97. tooluniverse/europe_pmc_tool.py +132 -17
  98. tooluniverse/exceptions.py +170 -0
  99. tooluniverse/execute_function.py +930 -387
  100. tooluniverse/fatcat_tool.py +0 -1
  101. tooluniverse/generate_tools.py +481 -0
  102. tooluniverse/genomics_gene_search_tool.py +56 -0
  103. tooluniverse/geo_tool.py +116 -0
  104. tooluniverse/gnomad_tool.py +63 -0
  105. tooluniverse/hal_tool.py +1 -1
  106. tooluniverse/llm_clients.py +101 -124
  107. tooluniverse/markitdown_tool.py +159 -0
  108. tooluniverse/mcp_client_tool.py +10 -5
  109. tooluniverse/mcp_tool_registry.py +4 -1
  110. tooluniverse/medrxiv_tool.py +32 -13
  111. tooluniverse/memory_manager.py +166 -0
  112. tooluniverse/molecule_2d_tool.py +274 -0
  113. tooluniverse/molecule_3d_tool.py +441 -0
  114. tooluniverse/odphp_tool.py +49 -14
  115. tooluniverse/openaire_tool.py +5 -20
  116. tooluniverse/openalex_tool.py +34 -0
  117. tooluniverse/osf_preprints_tool.py +1 -1
  118. tooluniverse/pmc_tool.py +54 -56
  119. tooluniverse/protein_structure_3d_tool.py +295 -0
  120. tooluniverse/pubmed_tool.py +69 -6
  121. tooluniverse/remote/boltz/boltz_mcp_server.py +3 -1
  122. tooluniverse/remote/uspto_downloader/uspto_downloader_mcp_server.py +3 -1
  123. tooluniverse/semantic_scholar_tool.py +40 -10
  124. tooluniverse/smcp.py +149 -213
  125. tooluniverse/smcp_server.py +97 -55
  126. tooluniverse/string_tool.py +112 -0
  127. tooluniverse/tool_registry.py +35 -3
  128. tooluniverse/tools/ADMETAI_predict_BBB_penetrance.py +46 -0
  129. tooluniverse/tools/ADMETAI_predict_CYP_interactions.py +46 -0
  130. tooluniverse/tools/ADMETAI_predict_bioavailability.py +46 -0
  131. tooluniverse/tools/ADMETAI_predict_clearance_distribution.py +49 -0
  132. tooluniverse/tools/ADMETAI_predict_nuclear_receptor_activity.py +49 -0
  133. tooluniverse/tools/ADMETAI_predict_physicochemical_properties.py +49 -0
  134. tooluniverse/tools/ADMETAI_predict_solubility_lipophilicity_hydration.py +49 -0
  135. tooluniverse/tools/ADMETAI_predict_stress_response.py +46 -0
  136. tooluniverse/tools/ADMETAI_predict_toxicity.py +46 -0
  137. tooluniverse/tools/ADMETAnalyzerAgent.py +59 -0
  138. tooluniverse/tools/AdvancedCodeQualityAnalyzer.py +63 -0
  139. tooluniverse/tools/AdverseEventICDMapper.py +46 -0
  140. tooluniverse/tools/AdverseEventPredictionQuestionGenerator.py +52 -0
  141. tooluniverse/tools/AdverseEventPredictionQuestionGeneratorWithContext.py +59 -0
  142. tooluniverse/tools/ArXiv_search_papers.py +63 -0
  143. tooluniverse/tools/ArgumentDescriptionOptimizer.py +55 -0
  144. tooluniverse/tools/BioRxiv_search_preprints.py +52 -0
  145. tooluniverse/tools/BiomarkerDiscoveryWorkflow.py +55 -0
  146. tooluniverse/tools/CMA_Guidelines_Search.py +52 -0
  147. tooluniverse/tools/CORE_search_papers.py +67 -0
  148. tooluniverse/tools/CallAgent.py +46 -0
  149. tooluniverse/tools/ChEMBL_search_similar_molecules.py +59 -0
  150. tooluniverse/tools/ClinVar_search_variants.py +52 -0
  151. tooluniverse/tools/ClinicalTrialDesignAgent.py +63 -0
  152. tooluniverse/tools/CodeOptimizer.py +55 -0
  153. tooluniverse/tools/CodeQualityAnalyzer.py +71 -0
  154. tooluniverse/tools/CompoundDiscoveryAgent.py +59 -0
  155. tooluniverse/tools/ComprehensiveDrugDiscoveryPipeline.py +49 -0
  156. tooluniverse/tools/Crossref_search_works.py +55 -0
  157. tooluniverse/tools/DBLP_search_publications.py +52 -0
  158. tooluniverse/tools/DOAJ_search_articles.py +55 -0
  159. tooluniverse/tools/DailyMed_get_spl_by_setid.py +52 -0
  160. tooluniverse/tools/DailyMed_search_spls.py +79 -0
  161. tooluniverse/tools/DataAnalysisValidityReviewer.py +49 -0
  162. tooluniverse/tools/DescriptionAnalyzer.py +55 -0
  163. tooluniverse/tools/DescriptionQualityEvaluator.py +59 -0
  164. tooluniverse/tools/DiseaseAnalyzerAgent.py +52 -0
  165. tooluniverse/tools/DomainExpertValidator.py +63 -0
  166. tooluniverse/tools/DrugInteractionAnalyzerAgent.py +52 -0
  167. tooluniverse/tools/DrugOptimizationAgent.py +63 -0
  168. tooluniverse/tools/DrugSafetyAnalyzer.py +59 -0
  169. tooluniverse/tools/Ensembl_lookup_gene_by_symbol.py +52 -0
  170. tooluniverse/tools/EthicalComplianceReviewer.py +49 -0
  171. tooluniverse/tools/EuropePMC_Guidelines_Search.py +52 -0
  172. tooluniverse/tools/EuropePMC_search_articles.py +52 -0
  173. tooluniverse/tools/ExperimentalDesignScorer.py +55 -0
  174. tooluniverse/tools/FAERS_count_additive_administration_routes.py +52 -0
  175. tooluniverse/tools/FAERS_count_additive_adverse_reactions.py +71 -0
  176. tooluniverse/tools/FAERS_count_additive_event_reports_by_country.py +63 -0
  177. tooluniverse/tools/FAERS_count_additive_reaction_outcomes.py +63 -0
  178. tooluniverse/tools/FAERS_count_additive_reports_by_reporter_country.py +63 -0
  179. tooluniverse/tools/FAERS_count_additive_seriousness_classification.py +63 -0
  180. tooluniverse/tools/FAERS_count_country_by_drug_event.py +63 -0
  181. tooluniverse/tools/FAERS_count_death_related_by_drug.py +49 -0
  182. tooluniverse/tools/FAERS_count_drug_routes_by_event.py +52 -0
  183. tooluniverse/tools/FAERS_count_drugs_by_drug_event.py +63 -0
  184. tooluniverse/tools/FAERS_count_outcomes_by_drug_event.py +63 -0
  185. tooluniverse/tools/FAERS_count_patient_age_distribution.py +49 -0
  186. tooluniverse/tools/FAERS_count_reactions_by_drug_event.py +71 -0
  187. tooluniverse/tools/FAERS_count_reportercountry_by_drug_event.py +63 -0
  188. tooluniverse/tools/FAERS_count_seriousness_by_drug_event.py +63 -0
  189. tooluniverse/tools/FDA_get_abuse_dependence_info_by_drug_name.py +55 -0
  190. tooluniverse/tools/FDA_get_abuse_info_by_drug_name.py +55 -0
  191. tooluniverse/tools/FDA_get_accessories_info_by_drug_name.py +55 -0
  192. tooluniverse/tools/FDA_get_active_ingredient_info_by_drug_name.py +55 -0
  193. tooluniverse/tools/FDA_get_adverse_reactions_by_drug_name.py +55 -0
  194. tooluniverse/tools/FDA_get_alarms_by_drug_name.py +55 -0
  195. tooluniverse/tools/FDA_get_animal_pharmacology_info_by_drug_name.py +55 -0
  196. tooluniverse/tools/FDA_get_assembly_installation_info_by_drug_name.py +55 -0
  197. tooluniverse/tools/FDA_get_boxed_warning_info_by_drug_name.py +55 -0
  198. tooluniverse/tools/FDA_get_brand_name_generic_name.py +52 -0
  199. tooluniverse/tools/FDA_get_calibration_instructions_by_drug_name.py +55 -0
  200. tooluniverse/tools/FDA_get_carcinogenic_mutagenic_fertility_by_drug_name.py +55 -0
  201. tooluniverse/tools/FDA_get_child_safety_info_by_drug_name.py +55 -0
  202. tooluniverse/tools/FDA_get_clinical_pharmacology_by_drug_name.py +55 -0
  203. tooluniverse/tools/FDA_get_clinical_studies_info_by_drug_name.py +55 -0
  204. tooluniverse/tools/FDA_get_contact_for_questions_info_by_drug_name.py +55 -0
  205. tooluniverse/tools/FDA_get_contraindications_by_drug_name.py +55 -0
  206. tooluniverse/tools/FDA_get_controlled_substance_DEA_schedule_info_by_drug_name.py +55 -0
  207. tooluniverse/tools/FDA_get_dear_health_care_provider_letter_info_by_drug_name.py +55 -0
  208. tooluniverse/tools/FDA_get_dependence_info_by_drug_name.py +55 -0
  209. tooluniverse/tools/FDA_get_disposal_info_by_drug_name.py +55 -0
  210. tooluniverse/tools/FDA_get_do_not_use_info_by_drug_name.py +55 -0
  211. tooluniverse/tools/FDA_get_document_id_by_drug_name.py +55 -0
  212. tooluniverse/tools/FDA_get_dosage_and_storage_information_by_drug_name.py +55 -0
  213. tooluniverse/tools/FDA_get_dosage_forms_and_strengths_by_drug_name.py +55 -0
  214. tooluniverse/tools/FDA_get_drug_generic_name.py +46 -0
  215. tooluniverse/tools/FDA_get_drug_interactions_by_drug_name.py +55 -0
  216. tooluniverse/tools/FDA_get_drug_name_by_SPL_ID.py +55 -0
  217. tooluniverse/tools/FDA_get_drug_name_by_adverse_reaction.py +59 -0
  218. tooluniverse/tools/FDA_get_drug_name_by_calibration_instructions.py +59 -0
  219. tooluniverse/tools/FDA_get_drug_name_by_dependence_info.py +59 -0
  220. tooluniverse/tools/FDA_get_drug_name_by_document_id.py +55 -0
  221. tooluniverse/tools/FDA_get_drug_name_by_dosage_info.py +55 -0
  222. tooluniverse/tools/FDA_get_drug_name_by_environmental_warning.py +59 -0
  223. tooluniverse/tools/FDA_get_drug_name_by_inactive_ingredient.py +59 -0
  224. tooluniverse/tools/FDA_get_drug_name_by_info_on_conditions_for_doctor_consultation.py +55 -0
  225. tooluniverse/tools/FDA_get_drug_name_by_labor_and_delivery_info.py +59 -0
  226. tooluniverse/tools/FDA_get_drug_name_by_microbiology.py +59 -0
  227. tooluniverse/tools/FDA_get_drug_name_by_other_safety_info.py +55 -0
  228. tooluniverse/tools/FDA_get_drug_name_by_pharmacodynamics.py +59 -0
  229. tooluniverse/tools/FDA_get_drug_name_by_pharmacogenomics.py +59 -0
  230. tooluniverse/tools/FDA_get_drug_name_by_precautions.py +55 -0
  231. tooluniverse/tools/FDA_get_drug_name_by_pregnancy_or_breastfeeding_info.py +59 -0
  232. tooluniverse/tools/FDA_get_drug_name_by_principal_display_panel.py +59 -0
  233. tooluniverse/tools/FDA_get_drug_name_by_reference.py +55 -0
  234. tooluniverse/tools/FDA_get_drug_name_by_set_id.py +55 -0
  235. tooluniverse/tools/FDA_get_drug_name_by_stop_use_info.py +55 -0
  236. tooluniverse/tools/FDA_get_drug_name_by_storage_and_handling_info.py +55 -0
  237. tooluniverse/tools/FDA_get_drug_name_by_warnings.py +55 -0
  238. tooluniverse/tools/FDA_get_drug_name_from_patient_package_insert.py +59 -0
  239. tooluniverse/tools/FDA_get_drug_names_by_abuse_dependence_info.py +55 -0
  240. tooluniverse/tools/FDA_get_drug_names_by_abuse_info.py +63 -0
  241. tooluniverse/tools/FDA_get_drug_names_by_accessories.py +63 -0
  242. tooluniverse/tools/FDA_get_drug_names_by_active_ingredient.py +63 -0
  243. tooluniverse/tools/FDA_get_drug_names_by_alarm.py +63 -0
  244. tooluniverse/tools/FDA_get_drug_names_by_animal_pharmacology_info.py +63 -0
  245. tooluniverse/tools/FDA_get_drug_names_by_application_number_NDC_number.py +59 -0
  246. tooluniverse/tools/FDA_get_drug_names_by_assembly_installation_info.py +63 -0
  247. tooluniverse/tools/FDA_get_drug_names_by_boxed_warning.py +63 -0
  248. tooluniverse/tools/FDA_get_drug_names_by_child_safety_info.py +63 -0
  249. tooluniverse/tools/FDA_get_drug_names_by_clinical_pharmacology.py +63 -0
  250. tooluniverse/tools/FDA_get_drug_names_by_clinical_studies.py +63 -0
  251. tooluniverse/tools/FDA_get_drug_names_by_consulting_doctor_pharmacist_info.py +63 -0
  252. tooluniverse/tools/FDA_get_drug_names_by_contraindications.py +63 -0
  253. tooluniverse/tools/FDA_get_drug_names_by_controlled_substance_DEA_schedule.py +63 -0
  254. tooluniverse/tools/FDA_get_drug_names_by_dear_health_care_provider_letter_info.py +63 -0
  255. tooluniverse/tools/FDA_get_drug_names_by_disposal_info.py +63 -0
  256. tooluniverse/tools/FDA_get_drug_names_by_dosage_forms_and_strengths_info.py +63 -0
  257. tooluniverse/tools/FDA_get_drug_names_by_drug_interactions.py +63 -0
  258. tooluniverse/tools/FDA_get_drug_names_by_effective_time.py +63 -0
  259. tooluniverse/tools/FDA_get_drug_names_by_food_safety_warnings.py +63 -0
  260. tooluniverse/tools/FDA_get_drug_names_by_general_precautions.py +63 -0
  261. tooluniverse/tools/FDA_get_drug_names_by_geriatric_use.py +63 -0
  262. tooluniverse/tools/FDA_get_drug_names_by_health_claim.py +63 -0
  263. tooluniverse/tools/FDA_get_drug_names_by_indication.py +55 -0
  264. tooluniverse/tools/FDA_get_drug_names_by_info_for_nursing_mothers.py +63 -0
  265. tooluniverse/tools/FDA_get_drug_names_by_information_for_owners_or_caregivers.py +63 -0
  266. tooluniverse/tools/FDA_get_drug_names_by_ingredient.py +63 -0
  267. tooluniverse/tools/FDA_get_drug_names_by_instructions_for_use.py +63 -0
  268. tooluniverse/tools/FDA_get_drug_names_by_lab_test_interference.py +63 -0
  269. tooluniverse/tools/FDA_get_drug_names_by_lab_tests.py +63 -0
  270. tooluniverse/tools/FDA_get_drug_names_by_mechanism_of_action.py +63 -0
  271. tooluniverse/tools/FDA_get_drug_names_by_medication_guide.py +63 -0
  272. tooluniverse/tools/FDA_get_drug_names_by_nonclinical_toxicology_info.py +63 -0
  273. tooluniverse/tools/FDA_get_drug_names_by_nonteratogenic_effects.py +63 -0
  274. tooluniverse/tools/FDA_get_drug_names_by_overdosage_info.py +63 -0
  275. tooluniverse/tools/FDA_get_drug_names_by_pediatric_use.py +63 -0
  276. tooluniverse/tools/FDA_get_drug_names_by_pharmacokinetics.py +63 -0
  277. tooluniverse/tools/FDA_get_drug_names_by_population_use.py +63 -0
  278. tooluniverse/tools/FDA_get_drug_names_by_pregnancy_effects_info.py +63 -0
  279. tooluniverse/tools/FDA_get_drug_names_by_residue_warning.py +63 -0
  280. tooluniverse/tools/FDA_get_drug_names_by_risk.py +63 -0
  281. tooluniverse/tools/FDA_get_drug_names_by_route.py +63 -0
  282. tooluniverse/tools/FDA_get_drug_names_by_safe_handling_warning.py +63 -0
  283. tooluniverse/tools/FDA_get_drug_names_by_safety_summary.py +63 -0
  284. tooluniverse/tools/FDA_get_drug_names_by_spl_indexing_data_elements.py +63 -0
  285. tooluniverse/tools/FDA_get_drug_names_by_teratogenic_effects.py +63 -0
  286. tooluniverse/tools/FDA_get_drug_names_by_user_safety_warning.py +63 -0
  287. tooluniverse/tools/FDA_get_drug_names_by_warnings_and_cautions.py +63 -0
  288. tooluniverse/tools/FDA_get_drugs_by_carcinogenic_mutagenic_fertility.py +63 -0
  289. tooluniverse/tools/FDA_get_effective_time_by_drug_name.py +55 -0
  290. tooluniverse/tools/FDA_get_environmental_warning_by_drug_name.py +55 -0
  291. tooluniverse/tools/FDA_get_general_precautions_by_drug_name.py +55 -0
  292. tooluniverse/tools/FDA_get_geriatric_use_info_by_drug_name.py +55 -0
  293. tooluniverse/tools/FDA_get_health_claims_by_drug_name.py +55 -0
  294. tooluniverse/tools/FDA_get_inactive_ingredient_info_by_drug_name.py +55 -0
  295. tooluniverse/tools/FDA_get_indications_by_drug_name.py +55 -0
  296. tooluniverse/tools/FDA_get_info_for_nursing_mothers_by_drug_name.py +55 -0
  297. tooluniverse/tools/FDA_get_info_for_patients_by_drug_name.py +55 -0
  298. tooluniverse/tools/FDA_get_info_on_conditions_for_doctor_consultation_by_drug_name.py +55 -0
  299. tooluniverse/tools/FDA_get_info_on_consulting_doctor_pharmacist_by_drug_name.py +55 -0
  300. tooluniverse/tools/FDA_get_information_for_owners_or_caregivers_by_drug_name.py +55 -0
  301. tooluniverse/tools/FDA_get_ingredients_by_drug_name.py +55 -0
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  776. tooluniverse/tools/gwas_get_associations_for_trait.py +55 -0
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  792. tooluniverse/tools/odphp_outlink_fetch.py +59 -0
  793. tooluniverse/tools/odphp_topicsearch.py +67 -0
  794. tooluniverse/tools/openalex_literature_search.py +67 -0
  795. tooluniverse/tools/reactome_disease_target_score.py +52 -0
  796. tooluniverse/tools/search_clinical_trials.py +67 -0
  797. tooluniverse/tools/visualize_molecule_2d.py +83 -0
  798. tooluniverse/tools/visualize_molecule_3d.py +91 -0
  799. tooluniverse/tools/visualize_protein_structure_3d.py +79 -0
  800. tooluniverse/ucsc_tool.py +60 -0
  801. tooluniverse/unified_guideline_tools.py +2328 -0
  802. tooluniverse/unpaywall_tool.py +0 -1
  803. tooluniverse/utils.py +122 -6
  804. tooluniverse/visualization_tool.py +897 -0
  805. tooluniverse/wikidata_sparql_tool.py +1 -2
  806. tooluniverse/zenodo_tool.py +3 -4
  807. {tooluniverse-1.0.6.dist-info → tooluniverse-1.0.8.dist-info}/METADATA +19 -4
  808. tooluniverse-1.0.8.dist-info/RECORD +891 -0
  809. {tooluniverse-1.0.6.dist-info → tooluniverse-1.0.8.dist-info}/entry_points.txt +3 -0
  810. tooluniverse/test/list_azure_openai_models.py +0 -210
  811. tooluniverse/test/mcp_server_test.py +0 -0
  812. tooluniverse/test/test_admetai_tool.py +0 -370
  813. tooluniverse/test/test_agentic_tool.py +0 -129
  814. tooluniverse/test/test_agentic_tool_azure_models.py +0 -91
  815. tooluniverse/test/test_alphafold_tool.py +0 -108
  816. tooluniverse/test/test_api_key_validation_min.py +0 -64
  817. tooluniverse/test/test_chem_tool.py +0 -37
  818. tooluniverse/test/test_claude_sdk.py +0 -93
  819. tooluniverse/test/test_compose_lieraturereview.py +0 -63
  820. tooluniverse/test/test_compose_tool.py +0 -448
  821. tooluniverse/test/test_dailymed.py +0 -69
  822. tooluniverse/test/test_dataset_tool.py +0 -200
  823. tooluniverse/test/test_disease_target_score.py +0 -56
  824. tooluniverse/test/test_drugbank_filter_examples.py +0 -179
  825. tooluniverse/test/test_efo.py +0 -31
  826. tooluniverse/test/test_enrichr_tool.py +0 -21
  827. tooluniverse/test/test_europe_pmc_tool.py +0 -20
  828. tooluniverse/test/test_fda_adv.py +0 -95
  829. tooluniverse/test/test_fda_drug_labeling.py +0 -91
  830. tooluniverse/test/test_gene_ontology_tools.py +0 -66
  831. tooluniverse/test/test_global_fallback.py +0 -288
  832. tooluniverse/test/test_gwas_tool.py +0 -139
  833. tooluniverse/test/test_hooks_direct.py +0 -219
  834. tooluniverse/test/test_hpa.py +0 -625
  835. tooluniverse/test/test_humanbase_tool.py +0 -20
  836. tooluniverse/test/test_idmap_tools.py +0 -61
  837. tooluniverse/test/test_list_built_in_tools.py +0 -33
  838. tooluniverse/test/test_mcp_server.py +0 -211
  839. tooluniverse/test/test_mcp_tool.py +0 -247
  840. tooluniverse/test/test_medlineplus.py +0 -220
  841. tooluniverse/test/test_odphp_tool.py +0 -166
  842. tooluniverse/test/test_openalex_tool.py +0 -32
  843. tooluniverse/test/test_openrouter_client.py +0 -288
  844. tooluniverse/test/test_opentargets.py +0 -28
  845. tooluniverse/test/test_pubchem_tool.py +0 -116
  846. tooluniverse/test/test_pubtator_tool.py +0 -37
  847. tooluniverse/test/test_rcsb_pdb_tool.py +0 -86
  848. tooluniverse/test/test_reactome.py +0 -54
  849. tooluniverse/test/test_semantic_scholar_tool.py +0 -24
  850. tooluniverse/test/test_software_tools.py +0 -147
  851. tooluniverse/test/test_stdio_hooks.py +0 -285
  852. tooluniverse/test/test_tool_description_optimizer.py +0 -49
  853. tooluniverse/test/test_tool_finder.py +0 -26
  854. tooluniverse/test/test_tool_finder_llm.py +0 -252
  855. tooluniverse/test/test_tools_find.py +0 -195
  856. tooluniverse/test/test_uniprot_tools.py +0 -74
  857. tooluniverse/test/test_uspto_tool.py +0 -72
  858. tooluniverse/test/test_xml_tool.py +0 -113
  859. tooluniverse-1.0.6.dist-info/RECORD +0 -230
  860. {tooluniverse-1.0.6.dist-info → tooluniverse-1.0.8.dist-info}/WHEEL +0 -0
  861. {tooluniverse-1.0.6.dist-info → tooluniverse-1.0.8.dist-info}/licenses/LICENSE +0 -0
  862. {tooluniverse-1.0.6.dist-info → tooluniverse-1.0.8.dist-info}/top_level.txt +0 -0
@@ -1,491 +1,1107 @@
1
1
  [
2
- {
3
- "type": "FDADrugAdverseEventTool",
4
- "name": "FAERS_count_reactions_by_drug_event",
5
- "description": "Count the number of adverse reactions reported for a given drug, filtered by patient details, event seriousness, and reaction outcomes. Data source: FDA Adverse Event Reporting System (FAERS).",
6
- "parameter": {
7
- "type": "object",
8
- "properties": {
9
- "medicinalproduct": { "type": "string", "description": "Drug name." },
10
- "patientsex": { "type": "string", "enum": ["Male", "Female"], "description": "Patient sex, leave it blank if you don't want to apply a filter." },
11
- "patientagegroup": { "type": "string", "enum": ["Neonate", "Infant", "Child", "Adolescent", "Adult", "Elderly"], "description": "Patient age group." },
12
- "occurcountry": { "type": "string", "pattern": "^[A-Z]{2}$", "description": "Country where event occurred." },
13
- "serious": { "type": "string", "enum": ["Yes","No"], "description": "Whether the event was serious." },
14
- "seriousnessdeath": { "type": "string", "enum": ["Yes", "No"], "description": "Was death reported?" }
15
- },
16
- "required": ["medicinalproduct"]
2
+ {
3
+ "type": "FDADrugAdverseEventTool",
4
+ "name": "FAERS_count_reactions_by_drug_event",
5
+ "description": "Count the number of adverse reactions reported for a given drug, filtered by patient details, event seriousness, and reaction outcomes. Data source: FDA Adverse Event Reporting System (FAERS).",
6
+ "parameter": {
7
+ "type": "object",
8
+ "properties": {
9
+ "medicinalproduct": {
10
+ "type": "string",
11
+ "description": "Drug name."
12
+ },
13
+ "patientsex": {
14
+ "type": "string",
15
+ "enum": [
16
+ "Male",
17
+ "Female"
18
+ ],
19
+ "description": "Patient sex, leave it blank if you don't want to apply a filter."
20
+ },
21
+ "patientagegroup": {
22
+ "type": "string",
23
+ "enum": [
24
+ "Neonate",
25
+ "Infant",
26
+ "Child",
27
+ "Adolescent",
28
+ "Adult",
29
+ "Elderly"
30
+ ],
31
+ "description": "Patient age group."
32
+ },
33
+ "occurcountry": {
34
+ "type": "string",
35
+ "pattern": "^[A-Z]{2}$",
36
+ "description": "Country where event occurred."
37
+ },
38
+ "serious": {
39
+ "type": "string",
40
+ "enum": [
41
+ "Yes",
42
+ "No"
43
+ ],
44
+ "description": "Whether the event was serious."
45
+ },
46
+ "seriousnessdeath": {
47
+ "type": "string",
48
+ "enum": [
49
+ "Yes",
50
+ "No"
51
+ ],
52
+ "description": "Was death reported?"
53
+ }
17
54
  },
18
- "fields": {
19
- "search_fields": {
20
- "medicinalproduct": ["patient.drug.medicinalproduct"],
21
- "patientsex": ["patient.patientsex"],
22
- "patientagegroup": ["patient.patientagegroup"],
23
- "occurcountry": ["occurcountry"],
24
- "serious": ["serious"],
25
- "seriousnessdeath": ["seriousnessdeath"]
26
- },
27
- "return_fields": ["patient.reaction.reactionmeddrapt.exact"]
28
- }
55
+ "required": [
56
+ "medicinalproduct",
57
+ "patientsex",
58
+ "patientagegroup",
59
+ "occurcountry",
60
+ "serious",
61
+ "seriousnessdeath"
62
+ ]
29
63
  },
30
- {
31
- "type": "FDADrugAdverseEventTool",
32
- "name": "FAERS_count_drugs_by_drug_event",
33
- "description": "Count the number of different drugs involved in FDA adverse event reports, filtered by patient details, country, and seriousness. Data source: FDA Adverse Event Reporting System (FAERS).",
34
- "parameter": {
35
- "type": "object",
36
- "properties": {
37
- "patientsex": { "type": "string", "enum": ["Male", "Female"], "description": "Patient sex, leave it blank if you don't want to apply a filter." },
38
- "patientagegroup": { "type": "string", "enum": ["Neonate", "Infant", "Child", "Adolescent", "Adult", "Elderly"], "description": "Patient age group." },
39
- "occurcountry": { "type": "string", "pattern": "^[A-Z]{2}$", "description": "Country where event occurred." },
40
- "serious": { "type": "string", "enum": ["Yes","No"], "description": "Whether the event was serious." }
41
- },
42
- "required": []
64
+ "fields": {
65
+ "search_fields": {
66
+ "medicinalproduct": [
67
+ "patient.drug.medicinalproduct"
68
+ ],
69
+ "patientsex": [
70
+ "patient.patientsex"
71
+ ],
72
+ "patientagegroup": [
73
+ "patient.patientagegroup"
74
+ ],
75
+ "occurcountry": [
76
+ "occurcountry"
77
+ ],
78
+ "serious": [
79
+ "serious"
80
+ ],
81
+ "seriousnessdeath": [
82
+ "seriousnessdeath"
83
+ ]
43
84
  },
44
- "fields": {
45
- "search_fields": {
46
- "patientsex": ["patient.patientsex"],
47
- "patientagegroup": ["patient.patientagegroup"],
48
- "occurcountry": ["occurcountry"],
49
- "serious": ["serious"]
50
- },
51
- "return_fields": ["patient.drug.medicinalproduct.exact"]
52
- }
85
+ "return_fields": [
86
+ "patient.reaction.reactionmeddrapt.exact"
87
+ ]
88
+ }
89
+ },
90
+ {
91
+ "type": "FDADrugAdverseEventTool",
92
+ "name": "FAERS_count_drugs_by_drug_event",
93
+ "description": "Count the number of different drugs involved in FDA adverse event reports, filtered by patient details, country, and seriousness. Data source: FDA Adverse Event Reporting System (FAERS).",
94
+ "parameter": {
95
+ "type": "object",
96
+ "properties": {
97
+ "patientsex": {
98
+ "type": "string",
99
+ "enum": [
100
+ "Male",
101
+ "Female"
102
+ ],
103
+ "description": "Patient sex, leave it blank if you don't want to apply a filter."
104
+ },
105
+ "patientagegroup": {
106
+ "type": "string",
107
+ "enum": [
108
+ "Neonate",
109
+ "Infant",
110
+ "Child",
111
+ "Adolescent",
112
+ "Adult",
113
+ "Elderly"
114
+ ],
115
+ "description": "Patient age group."
116
+ },
117
+ "occurcountry": {
118
+ "type": "string",
119
+ "pattern": "^[A-Z]{2}$",
120
+ "description": "Country where event occurred."
121
+ },
122
+ "serious": {
123
+ "type": "string",
124
+ "enum": [
125
+ "Yes",
126
+ "No"
127
+ ],
128
+ "description": "Whether the event was serious."
129
+ }
130
+ },
131
+ "required": [
132
+ "patientsex",
133
+ "patientagegroup",
134
+ "occurcountry",
135
+ "serious"
136
+ ]
53
137
  },
54
- {
55
- "type": "FDADrugAdverseEventTool",
56
- "name": "FAERS_count_country_by_drug_event",
57
- "description": "Count the number of adverse event reports per country of occurrence, filtered by drug, patient demographics, and seriousness. Data source: FDA Adverse Event Reporting System (FAERS).",
58
- "parameter": {
59
- "type": "object",
60
- "properties": {
61
- "medicinalproduct": { "type": "string", "description": "Drug name." },
62
- "patientsex": { "type": "string", "enum": ["Male", "Female"], "description": "Patient sex, leave it blank if you don't want to apply a filter." },
63
- "patientagegroup": { "type": "string", "enum": ["Neonate", "Infant", "Child", "Adolescent", "Adult", "Elderly"], "description": "Patient age group." },
64
- "serious": { "type": "string", "enum": ["Yes","No"], "description": "Whether the event was serious." }
65
- },
66
- "required": []
138
+ "fields": {
139
+ "search_fields": {
140
+ "patientsex": [
141
+ "patient.patientsex"
142
+ ],
143
+ "patientagegroup": [
144
+ "patient.patientagegroup"
145
+ ],
146
+ "occurcountry": [
147
+ "occurcountry"
148
+ ],
149
+ "serious": [
150
+ "serious"
151
+ ]
67
152
  },
68
- "fields": {
69
- "search_fields": {
70
- "medicinalproduct": ["patient.drug.medicinalproduct"],
71
- "patientsex": ["patient.patientsex"],
72
- "patientagegroup": ["patient.patientagegroup"],
73
- "serious": ["serious"]
74
- },
75
- "return_fields": ["occurcountry.exact"]
76
- }
153
+ "return_fields": [
154
+ "patient.drug.medicinalproduct.exact"
155
+ ]
156
+ }
157
+ },
158
+ {
159
+ "type": "FDADrugAdverseEventTool",
160
+ "name": "FAERS_count_country_by_drug_event",
161
+ "description": "Count the number of adverse event reports per country of occurrence, filtered by drug, patient demographics, and seriousness. Data source: FDA Adverse Event Reporting System (FAERS).",
162
+ "parameter": {
163
+ "type": "object",
164
+ "properties": {
165
+ "medicinalproduct": {
166
+ "type": "string",
167
+ "description": "Drug name."
168
+ },
169
+ "patientsex": {
170
+ "type": "string",
171
+ "enum": [
172
+ "Male",
173
+ "Female"
174
+ ],
175
+ "description": "Patient sex, leave it blank if you don't want to apply a filter."
176
+ },
177
+ "patientagegroup": {
178
+ "type": "string",
179
+ "enum": [
180
+ "Neonate",
181
+ "Infant",
182
+ "Child",
183
+ "Adolescent",
184
+ "Adult",
185
+ "Elderly"
186
+ ],
187
+ "description": "Patient age group."
188
+ },
189
+ "serious": {
190
+ "type": "string",
191
+ "enum": [
192
+ "Yes",
193
+ "No"
194
+ ],
195
+ "description": "Whether the event was serious."
196
+ }
197
+ },
198
+ "required": [
199
+ "medicinalproduct",
200
+ "patientsex",
201
+ "patientagegroup",
202
+ "serious"
203
+ ]
77
204
  },
78
- {
79
- "type": "FDADrugAdverseEventTool",
80
- "name": "FAERS_count_reportercountry_by_drug_event",
81
- "description": "Count the number of FDA adverse event reports grouped by the country of the primary reporter. Data source: FDA Adverse Event Reporting System (FAERS).",
82
- "parameter": {
83
- "type": "object",
84
- "properties": {
85
- "medicinalproduct": { "type": "string", "description": "Drug name." },
86
- "patientsex": { "type": "string", "enum": ["Male", "Female"], "description": "Patient sex, leave it blank if you don't want to apply a filter." },
87
- "patientagegroup": { "type": "string", "enum": ["Neonate", "Infant", "Child", "Adolescent", "Adult", "Elderly"], "description": "Patient age group." },
88
- "serious": { "type": "string", "enum": ["Yes","No"], "description": "Whether the event was serious." }
89
- },
90
- "required": []
205
+ "fields": {
206
+ "search_fields": {
207
+ "medicinalproduct": [
208
+ "patient.drug.medicinalproduct"
209
+ ],
210
+ "patientsex": [
211
+ "patient.patientsex"
212
+ ],
213
+ "patientagegroup": [
214
+ "patient.patientagegroup"
215
+ ],
216
+ "serious": [
217
+ "serious"
218
+ ]
91
219
  },
92
- "fields": {
93
- "search_fields": {
94
- "medicinalproduct": ["patient.drug.medicinalproduct"],
95
- "patientsex": ["patient.patientsex"],
96
- "patientagegroup": ["patient.patientagegroup"],
97
- "serious": ["serious"]
98
- },
99
- "return_fields": ["primarysource.reportercountry.exact"]
100
- }
220
+ "return_fields": [
221
+ "occurcountry.exact"
222
+ ]
223
+ }
224
+ },
225
+ {
226
+ "type": "FDADrugAdverseEventTool",
227
+ "name": "FAERS_count_reportercountry_by_drug_event",
228
+ "description": "Count the number of FDA adverse event reports grouped by the country of the primary reporter. Data source: FDA Adverse Event Reporting System (FAERS).",
229
+ "parameter": {
230
+ "type": "object",
231
+ "properties": {
232
+ "medicinalproduct": {
233
+ "type": "string",
234
+ "description": "Drug name."
235
+ },
236
+ "patientsex": {
237
+ "type": "string",
238
+ "enum": [
239
+ "Male",
240
+ "Female"
241
+ ],
242
+ "description": "Patient sex, leave it blank if you don't want to apply a filter."
243
+ },
244
+ "patientagegroup": {
245
+ "type": "string",
246
+ "enum": [
247
+ "Neonate",
248
+ "Infant",
249
+ "Child",
250
+ "Adolescent",
251
+ "Adult",
252
+ "Elderly"
253
+ ],
254
+ "description": "Patient age group."
255
+ },
256
+ "serious": {
257
+ "type": "string",
258
+ "enum": [
259
+ "Yes",
260
+ "No"
261
+ ],
262
+ "description": "Whether the event was serious."
263
+ }
264
+ },
265
+ "required": [
266
+ "medicinalproduct",
267
+ "patientsex",
268
+ "patientagegroup",
269
+ "serious"
270
+ ]
101
271
  },
102
- {
103
- "type": "FDADrugAdverseEventTool",
104
- "name": "FAERS_count_seriousness_by_drug_event",
105
- "description": "Count the number of adverse event reports classified as serious or non-serious, filtered by drug and patient demographics. In results, term Serious means: 'The adverse event resulted in death, a life threatening condition, hospitalization, disability, congenital anomaly, or other serious condition', term Non-serious means 'The adverse event did not result in any of the above' Data source: FDA Adverse Event Reporting System (FAERS).",
106
- "parameter": {
107
- "type": "object",
108
- "properties": {
109
- "medicinalproduct": { "type": "string", "description": "Drug name." },
110
- "patientsex": { "type": "string", "enum": ["Male", "Female"], "description": "Patient sex, leave it blank if you don't want to apply a filter." },
111
- "patientagegroup": { "type": "string", "enum": ["Neonate", "Infant", "Child", "Adolescent", "Adult", "Elderly"], "description": "Patient age group." },
112
- "occurcountry": { "type": "string", "pattern": "^[A-Z]{2}$", "description": "Country where event occurred." }
113
- },
114
- "required": []
272
+ "fields": {
273
+ "search_fields": {
274
+ "medicinalproduct": [
275
+ "patient.drug.medicinalproduct"
276
+ ],
277
+ "patientsex": [
278
+ "patient.patientsex"
279
+ ],
280
+ "patientagegroup": [
281
+ "patient.patientagegroup"
282
+ ],
283
+ "serious": [
284
+ "serious"
285
+ ]
115
286
  },
116
- "fields": {
117
- "search_fields": {
118
- "medicinalproduct": ["patient.drug.medicinalproduct"],
119
- "patientsex": ["patient.patientsex"],
120
- "patientagegroup": ["patient.patientagegroup"],
121
- "occurcountry": ["occurcountry"]
122
- },
123
- "return_fields": ["serious"],
124
- "return_fields_mapping": {
125
- "serious": {
126
- "1": "Serious",
127
- "2": "Non-serious"
128
- }
287
+ "return_fields": [
288
+ "primarysource.reportercountry.exact"
289
+ ]
290
+ }
291
+ },
292
+ {
293
+ "type": "FDADrugAdverseEventTool",
294
+ "name": "FAERS_count_seriousness_by_drug_event",
295
+ "description": "Count the number of adverse event reports classified as serious or non-serious, filtered by drug and patient demographics. In results, term Serious means: 'The adverse event resulted in death, a life threatening condition, hospitalization, disability, congenital anomaly, or other serious condition', term Non-serious means 'The adverse event did not result in any of the above' Data source: FDA Adverse Event Reporting System (FAERS).",
296
+ "parameter": {
297
+ "type": "object",
298
+ "properties": {
299
+ "medicinalproduct": {
300
+ "type": "string",
301
+ "description": "Drug name."
302
+ },
303
+ "patientsex": {
304
+ "type": "string",
305
+ "enum": [
306
+ "Male",
307
+ "Female"
308
+ ],
309
+ "description": "Patient sex, leave it blank if you don't want to apply a filter."
310
+ },
311
+ "patientagegroup": {
312
+ "type": "string",
313
+ "enum": [
314
+ "Neonate",
315
+ "Infant",
316
+ "Child",
317
+ "Adolescent",
318
+ "Adult",
319
+ "Elderly"
320
+ ],
321
+ "description": "Patient age group."
322
+ },
323
+ "occurcountry": {
324
+ "type": "string",
325
+ "pattern": "^[A-Z]{2}$",
326
+ "description": "Country where event occurred."
129
327
  }
130
- }
328
+ },
329
+ "required": [
330
+ "medicinalproduct",
331
+ "patientsex",
332
+ "patientagegroup",
333
+ "occurcountry"
334
+ ]
131
335
  },
132
- {
133
- "type": "FDADrugAdverseEventTool",
134
- "name": "FAERS_count_outcomes_by_drug_event",
135
- "description": "Count the outcome of adverse reactions (recovered, recovering, fatal, unresolved) filtered by drug, seriousness, and demographics. Data source: FDA Adverse Event Reporting System (FAERS).",
136
- "parameter": {
137
- "type": "object",
138
- "properties": {
139
- "medicinalproduct": { "type": "string", "description": "Drug name." },
140
- "patientsex": { "type": "string", "enum": [ "Male", "Female"] },
141
- "patientagegroup": { "type": "string", "enum": ["Neonate", "Infant", "Child", "Adolescent", "Adult", "Elderly"] },
142
- "occurcountry": { "type": "string", "pattern": "^[A-Z]{2}$" }
143
- },
144
- "required": ["medicinalproduct"]
336
+ "fields": {
337
+ "search_fields": {
338
+ "medicinalproduct": [
339
+ "patient.drug.medicinalproduct"
340
+ ],
341
+ "patientsex": [
342
+ "patient.patientsex"
343
+ ],
344
+ "patientagegroup": [
345
+ "patient.patientagegroup"
346
+ ],
347
+ "occurcountry": [
348
+ "occurcountry"
349
+ ]
145
350
  },
146
- "fields": {
147
- "search_fields": {
148
- "medicinalproduct": ["patient.drug.medicinalproduct"],
149
- "patientsex": ["patient.patientsex"],
150
- "patientagegroup": ["patient.patientagegroup"],
151
- "occurcountry": ["occurcountry"]
152
- },
153
- "return_fields": ["patient.reaction.reactionoutcome"],
154
- "return_fields_mapping": {
155
- "patient.reaction.reactionoutcome": {
156
- "1": "Recovered/resolved",
157
- "2": "Recovering/resolving",
158
- "3": "Not recovered/not resolved",
159
- "4": "Recovered/resolved with sequelae (consequent health issues)",
160
- "5": "Fatal",
161
- "6": "Unknown"
162
- }
351
+ "return_fields": [
352
+ "serious"
353
+ ],
354
+ "return_fields_mapping": {
355
+ "serious": {
356
+ "1": "Serious",
357
+ "2": "Non-serious"
163
358
  }
164
359
  }
360
+ }
361
+ },
362
+ {
363
+ "type": "FDADrugAdverseEventTool",
364
+ "name": "FAERS_count_outcomes_by_drug_event",
365
+ "description": "Count the outcome of adverse reactions (recovered, recovering, fatal, unresolved) filtered by drug, seriousness, and demographics. Data source: FDA Adverse Event Reporting System (FAERS).",
366
+ "parameter": {
367
+ "type": "object",
368
+ "properties": {
369
+ "medicinalproduct": {
370
+ "type": "string",
371
+ "description": "Drug name."
372
+ },
373
+ "patientsex": {
374
+ "type": "string",
375
+ "enum": [
376
+ "Male",
377
+ "Female"
378
+ ]
379
+ },
380
+ "patientagegroup": {
381
+ "type": "string",
382
+ "enum": [
383
+ "Neonate",
384
+ "Infant",
385
+ "Child",
386
+ "Adolescent",
387
+ "Adult",
388
+ "Elderly"
389
+ ]
390
+ },
391
+ "occurcountry": {
392
+ "type": "string",
393
+ "pattern": "^[A-Z]{2}$"
394
+ }
395
+ },
396
+ "required": [
397
+ "medicinalproduct",
398
+ "patientsex",
399
+ "patientagegroup",
400
+ "occurcountry"
401
+ ]
165
402
  },
166
- {
167
- "type": "FDADrugAdverseEventTool",
168
- "name": "FAERS_count_drug_routes_by_event",
169
- "description": "Count the most common routes of administration for drugs involved in adverse event reports. Data source: FDA Adverse Event Reporting System (FAERS).",
170
- "parameter": {
171
- "type": "object",
172
- "properties": {
173
- "medicinalproduct": { "type": "string", "description": "Drug name." },
174
- "serious": { "type": "string", "enum": ["Yes","No"], "description": "Seriousness of event." }
175
- },
176
- "required": ["medicinalproduct"]
403
+ "fields": {
404
+ "search_fields": {
405
+ "medicinalproduct": [
406
+ "patient.drug.medicinalproduct"
407
+ ],
408
+ "patientsex": [
409
+ "patient.patientsex"
410
+ ],
411
+ "patientagegroup": [
412
+ "patient.patientagegroup"
413
+ ],
414
+ "occurcountry": [
415
+ "occurcountry"
416
+ ]
177
417
  },
178
- "fields": {
179
- "search_fields": {
180
- "medicinalproduct": ["patient.drug.medicinalproduct"],
181
- "serious": ["serious"]
182
- },
183
- "return_fields": ["patient.drug.drugadministrationroute.exact"],
184
- "return_fields_mapping": {
185
- "patient.drug.drugadministrationroute.exact": {
186
- "001": "Auricular (otic)",
187
- "002": "Buccal",
188
- "003": "Cutaneous",
189
- "004": "Dental",
190
- "005": "Endocervical",
191
- "006": "Endosinusial",
192
- "007": "Endotracheal",
193
- "008": "Epidural",
194
- "009": "Extra-amniotic",
195
- "010": "Hemodialysis",
196
- "011": "Intra corpus cavernosum",
197
- "012": "Intra-amniotic",
198
- "013": "Intra-arterial",
199
- "014": "Intra-articular",
200
- "015": "Intra-uterine",
201
- "016": "Intracardiac",
202
- "017": "Intracavernous",
203
- "018": "Intracerebral",
204
- "019": "Intracervical",
205
- "020": "Intracisternal",
206
- "021": "Intracorneal",
207
- "022": "Intracoronary",
208
- "023": "Intradermal",
209
- "024": "Intradiscal (intraspinal)",
210
- "025": "Intrahepatic",
211
- "026": "Intralesional",
212
- "027": "Intralymphatic",
213
- "028": "Intramedullar (bone marrow)",
214
- "029": "Intrameningeal",
215
- "030": "Intramuscular",
216
- "031": "Intraocular",
217
- "032": "Intrapericardial",
218
- "033": "Intraperitoneal",
219
- "034": "Intrapleural",
220
- "035": "Intrasynovial",
221
- "036": "Intratumor",
222
- "037": "Intrathecal",
223
- "038": "Intrathoracic",
224
- "039": "Intratracheal",
225
- "040": "Intravenous bolus",
226
- "041": "Intravenous drip",
227
- "042": "Intravenous (not otherwise specified)",
228
- "043": "Intravesical",
229
- "044": "Iontophoresis",
230
- "045": "Nasal",
231
- "046": "Occlusive dressing technique",
232
- "047": "Ophthalmic",
233
- "048": "Oral",
234
- "049": "Oropharingeal",
235
- "050": "Other",
236
- "051": "Parenteral",
237
- "052": "Periarticular",
238
- "053": "Perineural",
239
- "054": "Rectal",
240
- "055": "Respiratory (inhalation)",
241
- "056": "Retrobulbar",
242
- "057": "Sunconjunctival",
243
- "058": "Subcutaneous",
244
- "059": "Subdermal",
245
- "060": "Sublingual",
246
- "061": "Topical",
247
- "062": "Transdermal",
248
- "063": "Transmammary",
249
- "064": "Transplacental",
250
- "065": "Unknown",
251
- "066": "Urethral",
252
- "067": "Vaginal"
253
- }
418
+ "return_fields": [
419
+ "patient.reaction.reactionoutcome"
420
+ ],
421
+ "return_fields_mapping": {
422
+ "patient.reaction.reactionoutcome": {
423
+ "1": "Recovered/resolved",
424
+ "2": "Recovering/resolving",
425
+ "3": "Not recovered/not resolved",
426
+ "4": "Recovered/resolved with sequelae (consequent health issues)",
427
+ "5": "Fatal",
428
+ "6": "Unknown"
254
429
  }
255
430
  }
431
+ }
432
+ },
433
+ {
434
+ "type": "FDADrugAdverseEventTool",
435
+ "name": "FAERS_count_drug_routes_by_event",
436
+ "description": "Count the most common routes of administration for drugs involved in adverse event reports. Data source: FDA Adverse Event Reporting System (FAERS).",
437
+ "parameter": {
438
+ "type": "object",
439
+ "properties": {
440
+ "medicinalproduct": {
441
+ "type": "string",
442
+ "description": "Drug name."
443
+ },
444
+ "serious": {
445
+ "type": "string",
446
+ "enum": [
447
+ "Yes",
448
+ "No"
449
+ ],
450
+ "description": "Seriousness of event."
451
+ }
452
+ },
453
+ "required": [
454
+ "medicinalproduct",
455
+ "serious"
456
+ ]
256
457
  },
257
- {
258
- "type": "FDADrugAdverseEventTool",
259
- "name": "FAERS_count_patient_age_distribution",
260
- "description": "Analyze the age distribution of patients experiencing adverse events for a specific drug. The age groups are: Neonate (0-28 days), Infant (29 days - 23 months), Child (2-11 years), Adolescent (12-17 years), Adult (18-64 years), Elderly (65+ years). Data source: FDA Adverse Event Reporting System (FAERS).",
261
- "parameter": {
262
- "type": "object",
263
- "properties": {
264
- "medicinalproduct": { "type": "string", "description": "Drug name." }
265
- },
266
- "required": ["medicinalproduct"]
458
+ "fields": {
459
+ "search_fields": {
460
+ "medicinalproduct": [
461
+ "patient.drug.medicinalproduct"
462
+ ],
463
+ "serious": [
464
+ "serious"
465
+ ]
267
466
  },
268
- "fields": {
269
- "search_fields": {
270
- "medicinalproduct": ["patient.drug.medicinalproduct"]
271
- },
272
- "return_fields": ["patient.patientagegroup"],
273
- "return_fields_mapping": {
274
- "patient.patientagegroup": {
275
- "1": "Neonate",
276
- "2": "Infant",
277
- "3": "Child",
278
- "4": "Adolescent",
279
- "5": "Adult",
280
- "6": "Elderly"
281
- }
467
+ "return_fields": [
468
+ "patient.drug.drugadministrationroute.exact"
469
+ ],
470
+ "return_fields_mapping": {
471
+ "patient.drug.drugadministrationroute.exact": {
472
+ "001": "Auricular (otic)",
473
+ "002": "Buccal",
474
+ "003": "Cutaneous",
475
+ "004": "Dental",
476
+ "005": "Endocervical",
477
+ "006": "Endosinusial",
478
+ "007": "Endotracheal",
479
+ "008": "Epidural",
480
+ "009": "Extra-amniotic",
481
+ "010": "Hemodialysis",
482
+ "011": "Intra corpus cavernosum",
483
+ "012": "Intra-amniotic",
484
+ "013": "Intra-arterial",
485
+ "014": "Intra-articular",
486
+ "015": "Intra-uterine",
487
+ "016": "Intracardiac",
488
+ "017": "Intracavernous",
489
+ "018": "Intracerebral",
490
+ "019": "Intracervical",
491
+ "020": "Intracisternal",
492
+ "021": "Intracorneal",
493
+ "022": "Intracoronary",
494
+ "023": "Intradermal",
495
+ "024": "Intradiscal (intraspinal)",
496
+ "025": "Intrahepatic",
497
+ "026": "Intralesional",
498
+ "027": "Intralymphatic",
499
+ "028": "Intramedullar (bone marrow)",
500
+ "029": "Intrameningeal",
501
+ "030": "Intramuscular",
502
+ "031": "Intraocular",
503
+ "032": "Intrapericardial",
504
+ "033": "Intraperitoneal",
505
+ "034": "Intrapleural",
506
+ "035": "Intrasynovial",
507
+ "036": "Intratumor",
508
+ "037": "Intrathecal",
509
+ "038": "Intrathoracic",
510
+ "039": "Intratracheal",
511
+ "040": "Intravenous bolus",
512
+ "041": "Intravenous drip",
513
+ "042": "Intravenous (not otherwise specified)",
514
+ "043": "Intravesical",
515
+ "044": "Iontophoresis",
516
+ "045": "Nasal",
517
+ "046": "Occlusive dressing technique",
518
+ "047": "Ophthalmic",
519
+ "048": "Oral",
520
+ "049": "Oropharingeal",
521
+ "050": "Other",
522
+ "051": "Parenteral",
523
+ "052": "Periarticular",
524
+ "053": "Perineural",
525
+ "054": "Rectal",
526
+ "055": "Respiratory (inhalation)",
527
+ "056": "Retrobulbar",
528
+ "057": "Sunconjunctival",
529
+ "058": "Subcutaneous",
530
+ "059": "Subdermal",
531
+ "060": "Sublingual",
532
+ "061": "Topical",
533
+ "062": "Transdermal",
534
+ "063": "Transmammary",
535
+ "064": "Transplacental",
536
+ "065": "Unknown",
537
+ "066": "Urethral",
538
+ "067": "Vaginal"
282
539
  }
283
540
  }
541
+ }
542
+ },
543
+ {
544
+ "type": "FDADrugAdverseEventTool",
545
+ "name": "FAERS_count_patient_age_distribution",
546
+ "description": "Analyze the age distribution of patients experiencing adverse events for a specific drug. The age groups are: Neonate (0-28 days), Infant (29 days - 23 months), Child (2-11 years), Adolescent (12-17 years), Adult (18-64 years), Elderly (65+ years). Data source: FDA Adverse Event Reporting System (FAERS).",
547
+ "parameter": {
548
+ "type": "object",
549
+ "properties": {
550
+ "medicinalproduct": {
551
+ "type": "string",
552
+ "description": "Drug name."
553
+ }
554
+ },
555
+ "required": [
556
+ "medicinalproduct"
557
+ ]
284
558
  },
285
- {
286
- "type": "FDADrugAdverseEventTool",
287
- "name": "FAERS_count_death_related_by_drug",
288
- "description": "Count adverse events associated with patient death for a given drug. Data source: FDA Adverse Event Reporting System (FAERS).",
289
- "parameter": {
290
- "type": "object",
291
- "properties": {
292
- "medicinalproduct": { "type": "string", "description": "Drug name." }
293
- },
294
- "required": ["medicinalproduct"]
559
+ "fields": {
560
+ "search_fields": {
561
+ "medicinalproduct": [
562
+ "patient.drug.medicinalproduct"
563
+ ]
295
564
  },
296
- "fields": {
297
- "search_fields": {
298
- "medicinalproduct": ["patient.drug.medicinalproduct"],
299
- "seriousnessdeath": ["seriousnessdeath"]
300
- },
301
- "return_fields": ["seriousnessdeath"],
302
- "return_fields_mapping": {
303
- "seriousnessdeath": {
304
- "1": "death",
305
- "2": "alive"
306
- }
565
+ "return_fields": [
566
+ "patient.patientagegroup"
567
+ ],
568
+ "return_fields_mapping": {
569
+ "patient.patientagegroup": {
570
+ "1": "Neonate",
571
+ "2": "Infant",
572
+ "3": "Child",
573
+ "4": "Adolescent",
574
+ "5": "Adult",
575
+ "6": "Elderly"
307
576
  }
308
577
  }
578
+ }
579
+ },
580
+ {
581
+ "type": "FDADrugAdverseEventTool",
582
+ "name": "FAERS_count_death_related_by_drug",
583
+ "description": "Count adverse events associated with patient death for a given drug. Data source: FDA Adverse Event Reporting System (FAERS).",
584
+ "parameter": {
585
+ "type": "object",
586
+ "properties": {
587
+ "medicinalproduct": {
588
+ "type": "string",
589
+ "description": "Drug name."
590
+ }
591
+ },
592
+ "required": [
593
+ "medicinalproduct"
594
+ ]
309
595
  },
310
- {
311
- "type": "FDACountAdditiveReactionsTool",
312
- "name": "FAERS_count_additive_adverse_reactions",
313
- "description": "Additive multi-drug data: Aggregate adverse reaction counts across specified medicinal products, stratified by demographics, seriousness, and outcomes. Data source: FDA Adverse Event Reporting System (FAERS).",
314
- "parameter": {
315
- "type": "object",
316
- "properties": {
317
- "medicinalproducts": { "type": "array", "items": { "type": "string" }, "description": "Array of medicinal product names." },
318
- "patientsex": { "type": "string", "enum": ["Male","Female"], "description": "Filter by patient sex." },
319
- "patientagegroup": { "type": "string", "enum": ["Neonate","Infant","Child","Adolescent","Adult","Elderly"], "description": "Filter by patient age group." },
320
- "occurcountry": { "type": "string", "pattern": "^[A-Z]{2}$", "description": "Filter by ISO2 country code of occurrence." },
321
- "serious": { "type": "string", "enum": ["Yes","No"], "description": "Filter by seriousness classification." },
322
- "seriousnessdeath": { "type": "string", "enum": ["Yes","No"], "description": "Filter for fatal outcomes." }
323
- },
324
- "required": ["medicinalproducts"]
596
+ "fields": {
597
+ "search_fields": {
598
+ "medicinalproduct": [
599
+ "patient.drug.medicinalproduct"
600
+ ],
601
+ "seriousnessdeath": [
602
+ "seriousnessdeath"
603
+ ]
325
604
  },
326
- "fields": {
327
- "search_fields": {
328
- "medicinalproducts": ["patient.drug.medicinalproduct"],
329
- "patientsex": ["patient.patientsex"],
330
- "patientagegroup": ["patient.patientagegroup"],
331
- "occurcountry": ["occurcountry"],
332
- "serious": ["serious"],
333
- "seriousnessdeath": ["seriousnessdeath"]
334
- },
335
- "return_fields": ["patient.reaction.reactionmeddrapt.exact"]
605
+ "return_fields": [
606
+ "seriousnessdeath"
607
+ ],
608
+ "return_fields_mapping": {
609
+ "seriousnessdeath": {
610
+ "1": "death",
611
+ "2": "alive"
612
+ }
336
613
  }
614
+ }
615
+ },
616
+ {
617
+ "type": "FDACountAdditiveReactionsTool",
618
+ "name": "FAERS_count_additive_adverse_reactions",
619
+ "description": "Additive multi-drug data: Aggregate adverse reaction counts across specified medicinal products, stratified by demographics, seriousness, and outcomes. Data source: FDA Adverse Event Reporting System (FAERS).",
620
+ "parameter": {
621
+ "type": "object",
622
+ "properties": {
623
+ "medicinalproducts": {
624
+ "type": "array",
625
+ "items": {
626
+ "type": "string"
627
+ },
628
+ "description": "Array of medicinal product names."
629
+ },
630
+ "patientsex": {
631
+ "type": "string",
632
+ "enum": [
633
+ "Male",
634
+ "Female"
635
+ ],
636
+ "description": "Filter by patient sex."
637
+ },
638
+ "patientagegroup": {
639
+ "type": "string",
640
+ "enum": [
641
+ "Neonate",
642
+ "Infant",
643
+ "Child",
644
+ "Adolescent",
645
+ "Adult",
646
+ "Elderly"
647
+ ],
648
+ "description": "Filter by patient age group."
649
+ },
650
+ "occurcountry": {
651
+ "type": "string",
652
+ "pattern": "^[A-Z]{2}$",
653
+ "description": "Filter by ISO2 country code of occurrence."
654
+ },
655
+ "serious": {
656
+ "type": "string",
657
+ "enum": [
658
+ "Yes",
659
+ "No"
660
+ ],
661
+ "description": "Filter by seriousness classification."
662
+ },
663
+ "seriousnessdeath": {
664
+ "type": "string",
665
+ "enum": [
666
+ "Yes",
667
+ "No"
668
+ ],
669
+ "description": "Filter for fatal outcomes."
670
+ }
671
+ },
672
+ "required": [
673
+ "medicinalproducts",
674
+ "patientsex",
675
+ "patientagegroup",
676
+ "occurcountry",
677
+ "serious",
678
+ "seriousnessdeath"
679
+ ]
337
680
  },
338
- {
339
- "type": "FDACountAdditiveReactionsTool",
340
- "name": "FAERS_count_additive_event_reports_by_country",
341
- "description": "Additive multi-drug data: Aggregate report counts by country of occurrence across specified medicinal products. Data source: FDA Adverse Event Reporting System (FAERS).",
342
- "parameter": {
343
- "type": "object",
344
- "properties": {
345
- "medicinalproducts": { "type": "array", "items": { "type": "string" }, "description": "Array of medicinal product names." },
346
- "patientsex": { "type": "string", "enum": ["Male","Female"], "description": "Filter by sex." },
347
- "patientagegroup": { "type": "string", "enum": ["Neonate","Infant","Child","Adolescent","Adult","Elderly"], "description": "Filter by age group." },
348
- "serious": { "type": "string", "enum": ["Yes","No"], "description": "Filter by seriousness." }
349
- },
350
- "required": ["medicinalproducts"]
681
+ "fields": {
682
+ "search_fields": {
683
+ "medicinalproducts": [
684
+ "patient.drug.medicinalproduct"
685
+ ],
686
+ "patientsex": [
687
+ "patient.patientsex"
688
+ ],
689
+ "patientagegroup": [
690
+ "patient.patientagegroup"
691
+ ],
692
+ "occurcountry": [
693
+ "occurcountry"
694
+ ],
695
+ "serious": [
696
+ "serious"
697
+ ],
698
+ "seriousnessdeath": [
699
+ "seriousnessdeath"
700
+ ]
351
701
  },
352
- "fields": {
353
- "search_fields": {
354
- "medicinalproducts": ["patient.drug.medicinalproduct"],
355
- "patientsex": ["patient.patientsex"],
356
- "patientagegroup": ["patient.patientagegroup"],
357
- "serious": ["serious"]
358
- },
359
- "return_fields": ["occurcountry.exact"]
360
- }
702
+ "return_fields": [
703
+ "patient.reaction.reactionmeddrapt.exact"
704
+ ]
705
+ }
706
+ },
707
+ {
708
+ "type": "FDACountAdditiveReactionsTool",
709
+ "name": "FAERS_count_additive_event_reports_by_country",
710
+ "description": "Additive multi-drug data: Aggregate report counts by country of occurrence across specified medicinal products. Data source: FDA Adverse Event Reporting System (FAERS).",
711
+ "parameter": {
712
+ "type": "object",
713
+ "properties": {
714
+ "medicinalproducts": {
715
+ "type": "array",
716
+ "items": {
717
+ "type": "string"
718
+ },
719
+ "description": "Array of medicinal product names."
720
+ },
721
+ "patientsex": {
722
+ "type": "string",
723
+ "enum": [
724
+ "Male",
725
+ "Female"
726
+ ],
727
+ "description": "Filter by sex."
728
+ },
729
+ "patientagegroup": {
730
+ "type": "string",
731
+ "enum": [
732
+ "Neonate",
733
+ "Infant",
734
+ "Child",
735
+ "Adolescent",
736
+ "Adult",
737
+ "Elderly"
738
+ ],
739
+ "description": "Filter by age group."
740
+ },
741
+ "serious": {
742
+ "type": "string",
743
+ "enum": [
744
+ "Yes",
745
+ "No"
746
+ ],
747
+ "description": "Filter by seriousness."
748
+ }
749
+ },
750
+ "required": [
751
+ "medicinalproducts",
752
+ "patientsex",
753
+ "patientagegroup",
754
+ "serious"
755
+ ]
361
756
  },
362
- {
363
- "type": "FDACountAdditiveReactionsTool",
364
- "name": "FAERS_count_additive_reports_by_reporter_country",
365
- "description": "Additive multi-drug data: Aggregate adverse event reports by primary reporter country across medicinal products. Data source: FDA Adverse Event Reporting System (FAERS).",
366
- "parameter": {
367
- "type": "object",
368
- "properties": {
369
- "medicinalproducts": { "type": "array", "items": { "type": "string" }, "description": "Array of medicinal product names." },
370
- "patientsex": { "type": "string", "enum": ["Male","Female"], "description": "Filter by sex." },
371
- "patientagegroup": { "type": "string", "enum": ["Neonate","Infant","Child","Adolescent","Adult","Elderly"], "description": "Filter by age group." },
372
- "serious": { "type": "string", "enum": ["Yes","No"], "description": "Filter by seriousness." }
373
- },
374
- "required": ["medicinalproducts"]
757
+ "fields": {
758
+ "search_fields": {
759
+ "medicinalproducts": [
760
+ "patient.drug.medicinalproduct"
761
+ ],
762
+ "patientsex": [
763
+ "patient.patientsex"
764
+ ],
765
+ "patientagegroup": [
766
+ "patient.patientagegroup"
767
+ ],
768
+ "serious": [
769
+ "serious"
770
+ ]
375
771
  },
376
- "fields": {
377
- "search_fields": {
378
- "medicinalproducts": ["patient.drug.medicinalproduct"],
379
- "patientsex": ["patient.patientsex"],
380
- "patientagegroup": ["patient.patientagegroup"],
381
- "serious": ["serious"]
382
- },
383
- "return_fields": ["primarysource.reportercountry.exact"]
384
- }
772
+ "return_fields": [
773
+ "occurcountry.exact"
774
+ ]
775
+ }
776
+ },
777
+ {
778
+ "type": "FDACountAdditiveReactionsTool",
779
+ "name": "FAERS_count_additive_reports_by_reporter_country",
780
+ "description": "Additive multi-drug data: Aggregate adverse event reports by primary reporter country across medicinal products. Data source: FDA Adverse Event Reporting System (FAERS).",
781
+ "parameter": {
782
+ "type": "object",
783
+ "properties": {
784
+ "medicinalproducts": {
785
+ "type": "array",
786
+ "items": {
787
+ "type": "string"
788
+ },
789
+ "description": "Array of medicinal product names."
790
+ },
791
+ "patientsex": {
792
+ "type": "string",
793
+ "enum": [
794
+ "Male",
795
+ "Female"
796
+ ],
797
+ "description": "Filter by sex."
798
+ },
799
+ "patientagegroup": {
800
+ "type": "string",
801
+ "enum": [
802
+ "Neonate",
803
+ "Infant",
804
+ "Child",
805
+ "Adolescent",
806
+ "Adult",
807
+ "Elderly"
808
+ ],
809
+ "description": "Filter by age group."
810
+ },
811
+ "serious": {
812
+ "type": "string",
813
+ "enum": [
814
+ "Yes",
815
+ "No"
816
+ ],
817
+ "description": "Filter by seriousness."
818
+ }
819
+ },
820
+ "required": [
821
+ "medicinalproducts",
822
+ "patientsex",
823
+ "patientagegroup",
824
+ "serious"
825
+ ]
826
+ },
827
+ "fields": {
828
+ "search_fields": {
829
+ "medicinalproducts": [
830
+ "patient.drug.medicinalproduct"
831
+ ],
832
+ "patientsex": [
833
+ "patient.patientsex"
834
+ ],
835
+ "patientagegroup": [
836
+ "patient.patientagegroup"
837
+ ],
838
+ "serious": [
839
+ "serious"
840
+ ]
841
+ },
842
+ "return_fields": [
843
+ "primarysource.reportercountry.exact"
844
+ ]
845
+ }
846
+ },
847
+ {
848
+ "type": "FDACountAdditiveReactionsTool",
849
+ "name": "FAERS_count_additive_seriousness_classification",
850
+ "description": "Additive multi-drug data: Quantify serious vs non-serious classifications across medicinal products, annotated per regulatory definitions. Data source: FDA Adverse Event Reporting System (FAERS).",
851
+ "parameter": {
852
+ "type": "object",
853
+ "properties": {
854
+ "medicinalproducts": {
855
+ "type": "array",
856
+ "items": {
857
+ "type": "string"
858
+ },
859
+ "description": "Array of medicinal product names."
860
+ },
861
+ "patientsex": {
862
+ "type": "string",
863
+ "enum": [
864
+ "Male",
865
+ "Female"
866
+ ],
867
+ "description": "Filter by sex."
868
+ },
869
+ "patientagegroup": {
870
+ "type": "string",
871
+ "enum": [
872
+ "Neonate",
873
+ "Infant",
874
+ "Child",
875
+ "Adolescent",
876
+ "Adult",
877
+ "Elderly"
878
+ ],
879
+ "description": "Filter by age group."
880
+ },
881
+ "occurcountry": {
882
+ "type": "string",
883
+ "pattern": "^[A-Z]{2}$",
884
+ "description": "ISO2 country code filter."
885
+ }
886
+ },
887
+ "required": [
888
+ "medicinalproducts",
889
+ "patientsex",
890
+ "patientagegroup",
891
+ "occurcountry"
892
+ ]
385
893
  },
386
- {
387
- "type": "FDACountAdditiveReactionsTool",
388
- "name": "FAERS_count_additive_seriousness_classification",
389
- "description": "Additive multi-drug data: Quantify serious vs non-serious classifications across medicinal products, annotated per regulatory definitions. Data source: FDA Adverse Event Reporting System (FAERS).",
390
- "parameter": {
391
- "type": "object",
392
- "properties": {
393
- "medicinalproducts": { "type": "array", "items": { "type": "string" }, "description": "Array of medicinal product names." },
394
- "patientsex": { "type": "string", "enum": ["Male","Female"], "description": "Filter by sex." },
395
- "patientagegroup": { "type": "string", "enum": ["Neonate","Infant","Child","Adolescent","Adult","Elderly"], "description": "Filter by age group." },
396
- "occurcountry": { "type": "string", "pattern": "^[A-Z]{2}$", "description": "ISO2 country code filter." }
397
- },
398
- "required": ["medicinalproducts"]
894
+ "fields": {
895
+ "search_fields": {
896
+ "medicinalproducts": [
897
+ "patient.drug.medicinalproduct"
898
+ ],
899
+ "patientsex": [
900
+ "patient.patientsex"
901
+ ],
902
+ "patientagegroup": [
903
+ "patient.patientagegroup"
904
+ ],
905
+ "occurcountry": [
906
+ "occurcountry"
907
+ ]
399
908
  },
400
- "fields": {
401
- "search_fields": {
402
- "medicinalproducts": ["patient.drug.medicinalproduct"],
403
- "patientsex": ["patient.patientsex"],
404
- "patientagegroup": ["patient.patientagegroup"],
405
- "occurcountry": ["occurcountry"]
406
- },
407
- "return_fields": ["serious"],
408
- "return_fields_mapping": { "serious": { "1": "Serious", "2": "Non-serious" } }
909
+ "return_fields": [
910
+ "serious"
911
+ ],
912
+ "return_fields_mapping": {
913
+ "serious": {
914
+ "1": "Serious",
915
+ "2": "Non-serious"
916
+ }
409
917
  }
918
+ }
919
+ },
920
+ {
921
+ "type": "FDACountAdditiveReactionsTool",
922
+ "name": "FAERS_count_additive_reaction_outcomes",
923
+ "description": "Additive multi-drug data: Determine reaction outcome counts (e.g., recovered, resolving, fatal) across medicinal products using standardized outcome mappings. Data source: FDA Adverse Event Reporting System (FAERS).",
924
+ "parameter": {
925
+ "type": "object",
926
+ "properties": {
927
+ "medicinalproducts": {
928
+ "type": "array",
929
+ "items": {
930
+ "type": "string"
931
+ },
932
+ "description": "Array of medicinal product names."
933
+ },
934
+ "patientsex": {
935
+ "type": "string",
936
+ "enum": [
937
+ "Male",
938
+ "Female"
939
+ ]
940
+ },
941
+ "patientagegroup": {
942
+ "type": "string",
943
+ "enum": [
944
+ "Neonate",
945
+ "Infant",
946
+ "Child",
947
+ "Adolescent",
948
+ "Adult",
949
+ "Elderly"
950
+ ]
951
+ },
952
+ "occurcountry": {
953
+ "type": "string",
954
+ "pattern": "^[A-Z]{2}$"
955
+ }
956
+ },
957
+ "required": [
958
+ "medicinalproducts",
959
+ "patientsex",
960
+ "patientagegroup",
961
+ "occurcountry"
962
+ ]
410
963
  },
411
- {
412
- "type": "FDACountAdditiveReactionsTool",
413
- "name": "FAERS_count_additive_reaction_outcomes",
414
- "description": "Additive multi-drug data: Determine reaction outcome counts (e.g., recovered, resolving, fatal) across medicinal products using standardized outcome mappings. Data source: FDA Adverse Event Reporting System (FAERS).",
415
- "parameter": {
416
- "type": "object",
417
- "properties": {
418
- "medicinalproducts": { "type": "array", "items": { "type": "string" }, "description": "Array of medicinal product names." },
419
- "patientsex": { "type": "string", "enum": ["Male","Female"] },
420
- "patientagegroup": { "type": "string", "enum": ["Neonate","Infant","Child","Adolescent","Adult","Elderly"] },
421
- "occurcountry": { "type": "string", "pattern": "^[A-Z]{2}$" }
422
- },
423
- "required": ["medicinalproducts"]
964
+ "fields": {
965
+ "search_fields": {
966
+ "medicinalproducts": [
967
+ "patient.drug.medicinalproduct"
968
+ ],
969
+ "patientsex": [
970
+ "patient.patientsex"
971
+ ],
972
+ "patientagegroup": [
973
+ "patient.patientagegroup"
974
+ ],
975
+ "occurcountry": [
976
+ "occurcountry"
977
+ ]
424
978
  },
425
- "fields": {
426
- "search_fields": {
427
- "medicinalproducts": ["patient.drug.medicinalproduct"],
428
- "patientsex": ["patient.patientsex"],
429
- "patientagegroup": ["patient.patientagegroup"],
430
- "occurcountry": ["occurcountry"]
431
- },
432
- "return_fields": ["patient.reaction.reactionoutcome"],
433
- "return_fields_mapping": {
434
- "patient.reaction.reactionoutcome": {
435
- "1": "Recovered/resolved",
436
- "2": "Recovering/resolving",
437
- "3": "Not recovered/not resolved",
438
- "4": "Recovered/resolved with sequelae",
439
- "5": "Fatal",
440
- "6": "Unknown"
441
- }
979
+ "return_fields": [
980
+ "patient.reaction.reactionoutcome"
981
+ ],
982
+ "return_fields_mapping": {
983
+ "patient.reaction.reactionoutcome": {
984
+ "1": "Recovered/resolved",
985
+ "2": "Recovering/resolving",
986
+ "3": "Not recovered/not resolved",
987
+ "4": "Recovered/resolved with sequelae",
988
+ "5": "Fatal",
989
+ "6": "Unknown"
442
990
  }
443
991
  }
992
+ }
993
+ },
994
+ {
995
+ "type": "FDACountAdditiveReactionsTool",
996
+ "name": "FAERS_count_additive_administration_routes",
997
+ "description": "Additive multi-drug data: Enumerate and count administration routes for adverse events across specified medicinal products, using standardized route codes. Data source: FDA Adverse Event Reporting System (FAERS).",
998
+ "parameter": {
999
+ "type": "object",
1000
+ "properties": {
1001
+ "medicinalproducts": {
1002
+ "type": "array",
1003
+ "items": {
1004
+ "type": "string"
1005
+ },
1006
+ "description": "Array of medicinal product names."
1007
+ },
1008
+ "serious": {
1009
+ "type": "string",
1010
+ "enum": [
1011
+ "Yes",
1012
+ "No"
1013
+ ],
1014
+ "description": "Filter by seriousness."
1015
+ }
1016
+ },
1017
+ "required": [
1018
+ "medicinalproducts",
1019
+ "serious"
1020
+ ]
444
1021
  },
445
- {
446
- "type": "FDACountAdditiveReactionsTool",
447
- "name": "FAERS_count_additive_administration_routes",
448
- "description": "Additive multi-drug data: Enumerate and count administration routes for adverse events across specified medicinal products, using standardized route codes. Data source: FDA Adverse Event Reporting System (FAERS).",
449
- "parameter": {
450
- "type": "object",
451
- "properties": {
452
- "medicinalproducts": { "type": "array", "items": { "type": "string" }, "description": "Array of medicinal product names." },
453
- "serious": { "type": "string", "enum": ["Yes","No"], "description": "Filter by seriousness." }
454
- },
455
- "required": ["medicinalproducts"]
1022
+ "fields": {
1023
+ "search_fields": {
1024
+ "medicinalproducts": [
1025
+ "patient.drug.medicinalproduct"
1026
+ ],
1027
+ "serious": [
1028
+ "serious"
1029
+ ]
456
1030
  },
457
- "fields": {
458
- "search_fields": {
459
- "medicinalproducts": ["patient.drug.medicinalproduct"],
460
- "serious": ["serious"]
461
- },
462
- "return_fields": ["patient.drug.drugadministrationroute.exact"],
463
- "return_fields_mapping": {
464
- "patient.drug.drugadministrationroute.exact": {
465
- "001": "Auricular (otic)", "002": "Buccal", "003": "Cutaneous", "004": "Dental",
466
- "005": "Endocervical", "006": "Endosinusial", "007": "Endotracheal", "008": "Epidural",
467
- "009": "Extra-amniotic", "010": "Hemodialysis", "011": "Intra corpus cavernosum",
468
- "012": "Intra-amniotic", "013": "Intra-arterial", "014": "Intra-articular",
469
- "015": "Intra-uterine", "016": "Intracardiac", "017": "Intracavernous",
470
- "018": "Intracerebral", "019": "Intracervical", "020": "Intracisternal",
471
- "021": "Intracorneal", "022": "Intracoronary", "023": "Intradermal",
472
- "024": "Intradiscal (intraspinal)", "025": "Intrahepatic", "026": "Intralesional",
473
- "027": "Intralymphatic", "028": "Intramedullar (bone marrow)", "029": "Intrameningeal",
474
- "030": "Intramuscular", "031": "Intraocular", "032": "Intrapericardial",
475
- "033": "Intraperitoneal", "034": "Intrapleural", "035": "Intrasynovial",
476
- "036": "Intratumor", "037": "Intrathecal", "038": "Intrathoracic",
477
- "039": "Intratracheal", "040": "Intravenous bolus", "041": "Intravenous drip",
478
- "042": "Intravenous (not otherwise specified)", "043": "Intravesical",
479
- "044": "Iontophoresis", "045": "Nasal", "046": "Occlusive dressing technique",
480
- "047": "Ophthalmic", "048": "Oral", "049": "Oropharingeal", "050": "Other",
481
- "051": "Parenteral", "052": "Periarticular", "053": "Perineural",
482
- "054": "Rectal", "055": "Respiratory (inhalation)", "056": "Retrobulbar",
483
- "057": "Sunconjunctival", "058": "Subcutaneous", "059": "Subdermal",
484
- "060": "Sublingual", "061": "Topical", "062": "Transdermal",
485
- "063": "Transmammary", "064": "Transplacental", "065": "Unknown",
486
- "066": "Urethral", "067": "Vaginal"
487
- }
1031
+ "return_fields": [
1032
+ "patient.drug.drugadministrationroute.exact"
1033
+ ],
1034
+ "return_fields_mapping": {
1035
+ "patient.drug.drugadministrationroute.exact": {
1036
+ "001": "Auricular (otic)",
1037
+ "002": "Buccal",
1038
+ "003": "Cutaneous",
1039
+ "004": "Dental",
1040
+ "005": "Endocervical",
1041
+ "006": "Endosinusial",
1042
+ "007": "Endotracheal",
1043
+ "008": "Epidural",
1044
+ "009": "Extra-amniotic",
1045
+ "010": "Hemodialysis",
1046
+ "011": "Intra corpus cavernosum",
1047
+ "012": "Intra-amniotic",
1048
+ "013": "Intra-arterial",
1049
+ "014": "Intra-articular",
1050
+ "015": "Intra-uterine",
1051
+ "016": "Intracardiac",
1052
+ "017": "Intracavernous",
1053
+ "018": "Intracerebral",
1054
+ "019": "Intracervical",
1055
+ "020": "Intracisternal",
1056
+ "021": "Intracorneal",
1057
+ "022": "Intracoronary",
1058
+ "023": "Intradermal",
1059
+ "024": "Intradiscal (intraspinal)",
1060
+ "025": "Intrahepatic",
1061
+ "026": "Intralesional",
1062
+ "027": "Intralymphatic",
1063
+ "028": "Intramedullar (bone marrow)",
1064
+ "029": "Intrameningeal",
1065
+ "030": "Intramuscular",
1066
+ "031": "Intraocular",
1067
+ "032": "Intrapericardial",
1068
+ "033": "Intraperitoneal",
1069
+ "034": "Intrapleural",
1070
+ "035": "Intrasynovial",
1071
+ "036": "Intratumor",
1072
+ "037": "Intrathecal",
1073
+ "038": "Intrathoracic",
1074
+ "039": "Intratracheal",
1075
+ "040": "Intravenous bolus",
1076
+ "041": "Intravenous drip",
1077
+ "042": "Intravenous (not otherwise specified)",
1078
+ "043": "Intravesical",
1079
+ "044": "Iontophoresis",
1080
+ "045": "Nasal",
1081
+ "046": "Occlusive dressing technique",
1082
+ "047": "Ophthalmic",
1083
+ "048": "Oral",
1084
+ "049": "Oropharingeal",
1085
+ "050": "Other",
1086
+ "051": "Parenteral",
1087
+ "052": "Periarticular",
1088
+ "053": "Perineural",
1089
+ "054": "Rectal",
1090
+ "055": "Respiratory (inhalation)",
1091
+ "056": "Retrobulbar",
1092
+ "057": "Sunconjunctival",
1093
+ "058": "Subcutaneous",
1094
+ "059": "Subdermal",
1095
+ "060": "Sublingual",
1096
+ "061": "Topical",
1097
+ "062": "Transdermal",
1098
+ "063": "Transmammary",
1099
+ "064": "Transplacental",
1100
+ "065": "Unknown",
1101
+ "066": "Urethral",
1102
+ "067": "Vaginal"
488
1103
  }
489
1104
  }
490
1105
  }
491
- ]
1106
+ }
1107
+ ]