miEAA3 MCP Server

// ------------------------------------------------------------- // LOCAL TEST SCRIPT FOR miEAA MCP HANDLERS // ------------------------------------------------------------- // ------------------------------------------------------------- // IMPORTS // ------------------------------------------------------------- import { OverRepresentationAnalysisHandler } from "./dist/handlers/over_representation_analysis_handler.js"; import { MiEAACategoriesHandler } from "./dist/handlers/mieaa_categories_handler.js"; import { MiEAAMirBaseConverterHandler } from "./dist/handlers/mieaa_mirbase_converter_handler.js"; import { MiEAAMirnaPrecursorConverterHandler } from "./dist/handlers/mieaa_mirna_precursor_converter_handler.js"; // ------------------------------------------------------------- // Instantiate handlers // ------------------------------------------------------------- const oraTool = new OverRepresentationAnalysisHandler(); const categoryTool = new MiEAACategoriesHandler(); const mirbaseTool = new MiEAAMirBaseConverterHandler(); const converterTool = new MiEAAMirnaPrecursorConverterHandler(); // ------------------------------------------------------------- // TEST CASE 1 — miRNA Over-Representation Analysis (ORA) // ------------------------------------------------------------- console.log(" Starting miEAA miRNA ORA analysis...\n"); const mirnaOraResult = await oraTool.run({ species: "hsa", entity: "mirna", ids: [ "hsa-miR-20b-5p", "hsa-miR-144-5p", "hsa-miR-17-5p", "hsa-miR-20a-5p", "hsa-miR-222-3p", "hsa-miR-106a-5p", "hsa-miR-93-5p", "hsa-miR-126-3p", "hsa-miR-363-3p", "hsa-miR-374b-5p", "hsa-miR-18a-5p", "hsa-miR-130b-5p", "hsa-miR-148a-3p" ], category_selection: "1-5" }); console.log("\n FINAL RESULT (miRNA ORA):\n"); console.log(JSON.stringify(mirnaOraResult, null, 2)); // ------------------------------------------------------------- // TEST CASE 2 — Precursor Over-Representation Analysis (ORA) // ------------------------------------------------------------- console.log("\n\n Starting miEAA Precursor ORA analysis...\n"); const precursorOraResult = await oraTool.run({ species: "hsa", entity: "precursor", ids: [ "hsa-mir-20b", "hsa-mir-144", "hsa-mir-17", "hsa-mir-20a", "hsa-mir-222", "hsa-mir-106a", "hsa-mir-93", "hsa-mir-126", "hsa-mir-363", "hsa-mir-302c", "hsa-mir-374b", "hsa-mir-18a", "hsa-mir-548d", "hsa-mir-135a", "hsa-mir-558", "hsa-mir-130b", "hsa-mir-148a" ], category_selection: "1-5" }); console.log("\n FINAL RESULT (Precursor ORA):\n"); console.log(JSON.stringify(precursorOraResult, null, 2)); // ------------------------------------------------------------- // TEST CASE 3 — List Enrichment Categories // ------------------------------------------------------------- console.log("\n\n Fetching enrichment categories...\n"); const categoriesResult = await categoryTool.run({ species: "hsa", entity: "mirna" }); console.log("\n ENRICHMENT CATEGORIES:\n"); console.log(JSON.stringify(categoriesResult, null, 2)); // ------------------------------------------------------------- // TEST CASE 4 — miRBase Version Converter // ------------------------------------------------------------- console.log("\n\n Converting miRNAs between miRBase versions...\n"); const mirbaseResult = await mirbaseTool.run({ mirnas: [ "hsa-miR-17-5p", "hsa-miR-20a-5p", "hsa-miR-93-5p" ], from_version: "v22", to_version: "v21" }); console.log("\n miRBASE CONVERSION RESULT:\n"); console.log(JSON.stringify(mirbaseResult, null, 2)); // ------------------------------------------------------------- // TEST CASE 5 — miRNA ↔ Precursor Converter // ------------------------------------------------------------- console.log("\n\n Converting miRNAs ↔ Precursors...\n"); const converterResult = await converterTool.run({ direction: "mirna_to_precursor", ids: [ "hsa-miR-17-5p", "hsa-miR-20a-5p", "hsa-miR-93-5p" ] }); console.log("\n miRNA ↔ PRECURSOR CONVERSION:\n"); console.log(JSON.stringify(converterResult, null, 2)); // ------------------------------------------------------------- console.log("\n ALL miEAA MCP HANDLER TESTS COMPLETED SUCCESSFULLY 🎉\n");