{"$schema":"https://verifymcp.io/schemas/trust-report.json","schemaVersion":1,"license":{"name":"CC BY-NC 4.0","url":"https://creativecommons.org/licenses/by-nc/4.0/"},"generatedAt":"2026-11-05T19:30:27.424Z","url":"https://verifymcp.io/servers/pipeworx-io-gnomad/pipeworx-mcp-gnomad","markdownUrl":"https://verifymcp.io/servers/pipeworx-io-gnomad/pipeworx-mcp-gnomad.md","server":{"slug":"pipeworx-io-gnomad","name":"Gnomad","registryName":"io.github.pipeworx-io/gnomad","description":"gnomAD MCP — Broad Institute Genome Aggregation Database (GraphQL).","registryStatus":"active","deletedAt":null,"statusMessage":null,"liveness":"live","publisher":{"class":"unknown","claimed":false}},"component":{"slug":"pipeworx-mcp-gnomad","type":"npm","identifier":"@pipeworx/mcp-gnomad","withdrawn":false,"url":"https://verifymcp.io/servers/pipeworx-io-gnomad/pipeworx-mcp-gnomad","version":"0.2.1","transport":"stdio","scoredAt":"2026-11-05T03:24:39.742Z"},"score":{"total":80,"tier":"high trust","status":"scored","weekDelta":3,"history":[{"date":"2026-11-05","total":80},{"date":"2026-11-04","total":80},{"date":"2026-11-03","total":79},{"date":"2026-11-02","total":79},{"date":"2026-11-01","total":77},{"date":"2026-10-31","total":77},{"date":"2026-10-30","total":77},{"date":"2026-10-29","total":77}]},"categories":[{"name":"Supply Chain Security","score":100,"verdict":"pass","reasons":["No malware found by supply-chain analysis.","No known CVEs affecting this package version or its production dependencies.","No install/post-install scripts declared.","No production dependencies, so there is no dependency health to assess."],"codes":[{"code":"supplychain.malware_clean","args":{}},{"code":"cve.none","args":{}},{"code":"installscript.none","args":{}},{"code":"dephealth.no_dependencies","args":{"deps":"0","unhealthy":"0"}}]},{"name":"Provenance & Transparency","score":97,"verdict":"fail","reasons":["Source repository is publicly reachable at the declared URL.","Cryptographically verified build provenance (signed, bound to pipeworx-io/mcp-gnomad).","Clear OSI-approved license (MIT).","Actively maintained (last published 3 days ago).","Disclosure check failed: no security disclosure policy was found in the source repository."],"codes":[{"code":"provenance.repo_verified","args":{}},{"code":"provenance.verified","args":{"repo":"pipeworx-io/mcp-gnomad"}},{"code":"license.osi","args":{"spdx":"MIT"}},{"code":"maintenance.recent","args":{"age_days":"3"}},{"code":"disclosure.absent","args":{}}]},{"name":"Schema Quality & AI Usability","score":59,"verdict":"fail","reasons":["AI-judged instruction clarity (good).","Context-footprint check failed: tool/resource definitions use about 929 tokens (~185/item across 5 items; 5 tools + 0 resources), over budget; trim descriptions and params.","Usage-examples check failed: none of the tools include examples."],"codes":[{"code":"schema.ai_quality","args":{"band":"good"}},{"code":"schema.footprint_heavy","args":{"avg":"185","items":"5","tools":"5","tokens":"929","resources":"0"}},{"code":"schema.examples_absent","args":{}}]},{"name":"Stability & Change Management","score":23,"verdict":"partial","reasons":["Stability observed for 7 of 30 days with no destabilising changes; credit accrues until the full window elapses."],"codes":[{"code":"stability.building_history","args":{"days":"7"}}]},{"name":"Tool Coverage","score":87,"verdict":"partial","reasons":["100% of tools have a non-trivial description (not blank, and not just the tool's name).","61% of tool parameters carry a description."],"codes":[{"code":"toolquality.descriptions","args":{"pct":"100"}},{"code":"toolquality.param_docs","args":{"pct":"61"}}]},{"name":"Tool Safety","score":100,"verdict":"pass","reasons":["No prompt-injection markers were found in the server instructions, tool names or descriptions we captured.","We read all 5 captured tool definition(s), and no name or description among them implies an irreversible operation.","An AI judge read all 6 captured unit(s) of tool text and found none that tries to manipulate the model reading it."],"codes":[{"code":"toolsafety.injection_clean","args":{}},{"code":"toolsafety.destructive_none","args":{"tools":"5"}},{"code":"toolsafety.manipulation_clean","args":{"units":"6","judged":"6"}}]},{"name":"Capabilities","score":100,"verdict":"pass","reasons":["Implements a supported MCP spec version (2025-11-25); the latest is 2026-07-28."],"codes":[{"code":"protocol.supported","args":{"latest":"2026-07-28","version":"2025-11-25"}}]}],"inconclusive":[],"malware":[],"components":[{"slug":"gnomad-mcp","type":"remote","identifier":"https://gateway.pipeworx.io/gnomad/mcp","withdrawn":false,"score":77,"current":false,"url":"https://verifymcp.io/servers/pipeworx-io-gnomad/gnomad-mcp","markdownUrl":"https://verifymcp.io/servers/pipeworx-io-gnomad/gnomad-mcp.md"},{"slug":"pipeworx-mcp-gnomad","type":"npm","identifier":"@pipeworx/mcp-gnomad","withdrawn":false,"score":80,"current":true,"url":"https://verifymcp.io/servers/pipeworx-io-gnomad/pipeworx-mcp-gnomad","markdownUrl":"https://verifymcp.io/servers/pipeworx-io-gnomad/pipeworx-mcp-gnomad.md"}],"facts":[{"label":"Registry","value":"npm"},{"label":"Package","value":"@pipeworx/mcp-gnomad"},{"label":"Version","value":"0.2.1"},{"label":"Transport","value":"stdio"}],"install":{"available":true,"bundleSha256":null},"tools":[{"name":"variant","title":null,"description":"Variant by chr-pos-ref-alt (e.g. \"1-55051215-G-A\") or rsid (e.g. \"rs1801133\"). 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There is no default, because every position is valid in both builds — an unstated build cannot be detected,…"},{"name":"chrom","type":"string","required":true,"description":"e.g. \"1\", \"X\", \"MT\""},{"name":"dataset","type":"string","required":false,"description":"Default gnomad_r4 (GRCh38). gnomad_r2_1* and exac are GRCh37."},{"name":"limit","type":"number","required":false,"description":"Variants to return, 1-2000. Default 500. gnomAD returns every variant with no limit of its own (BRCA1 has ~7,300), so the list is paged here; variants_page says how many exist and the next offset."},{"name":"offset","type":"number","required":false,"description":"Skip this many variants first, for the next page (variants_page.next_offset). Default 0."},{"name":"start","type":"number","required":true,"description":null},{"name":"stop","type":"number","required":true,"description":null}],"outputs":[],"hasOutputSchema":false,"hasExamples":false,"tokenEstimate":342},{"name":"transcript","title":null,"description":"Fetch gnomAD variant data for an Ensembl transcript (ENST…), returning transcript coordinates, gene symbol, chromosome position, and per-variant allele counts (ac/an) from exome and genome datasets. Variants are paged (default 500, max 2,000 per call); variants_page gives the exact total and next_offset.","inputs":[{"name":"dataset","type":"string","required":false,"description":null},{"name":"limit","type":"number","required":false,"description":"Variants to return, 1-2000. 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