{
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  "item": {
    "slug": "clarity-clinical",
    "name": "Clarity Clinical",
    "source": "tencent",
    "type": "skill",
    "category": "开发工具",
    "sourceUrl": "https://clawhub.ai/clarityprotocol/clarity-clinical",
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      "scripts/api_client.py",
      "scripts/query_clinical.py"
    ],
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      "Import or place the package into your OpenClaw setup."
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        },
        {
          "label": "Upgrade existing",
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      "primaryActionLabel": "Download for OpenClaw",
      "primaryActionHref": "/downloads/clarity-clinical"
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    "summary": "Hand the extracted package to your coding agent with a concrete install brief instead of figuring it out manually.",
    "steps": [
      "Download the package from Yavira.",
      "Extract it into a folder your agent can access.",
      "Paste one of the prompts below and point your agent at the extracted folder."
    ],
    "prompts": [
      {
        "label": "New install",
        "body": "I downloaded a skill package from Yavira. Read SKILL.md from the extracted folder and install it by following the included instructions. Tell me what you changed and call out any manual steps you could not complete."
      },
      {
        "label": "Upgrade existing",
        "body": "I downloaded an updated skill package from Yavira. Read SKILL.md from the extracted folder, compare it with my current installation, and upgrade it while preserving any custom configuration unless the package docs explicitly say otherwise. Summarize what changed and any follow-up checks I should run."
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  "documentation": {
    "source": "clawhub",
    "primaryDoc": "SKILL.md",
    "sections": [
      {
        "title": "Clarity Clinical Skill",
        "body": "Access clinical variant annotations from ClinVar and population frequency data from gnomAD through Clarity Protocol's integrated database."
      },
      {
        "title": "Quick Start",
        "body": "List all clinical variants:\n\npython scripts/query_clinical.py\n\nFilter by gene symbol:\n\npython scripts/query_clinical.py --gene-symbol MAPT\n\nGet details for a specific variant:\n\npython scripts/query_clinical.py --gene MAPT --variant NM_005910.6:c.926C>T\n\nGet variant details in readable format:\n\npython scripts/query_clinical.py --gene MAPT --variant NM_005910.6:c.926C>T --format summary"
      },
      {
        "title": "Clinical Variant Fields",
        "body": "Each clinical variant includes:\n\ngene_symbol: HGNC gene symbol\nvariant_notation: Full HGVS notation (transcript-based)\nclinvar_significance: Clinical significance classification (e.g., \"Pathogenic\", \"Benign\")\nclinvar_review_status: Review status stars (e.g., \"criteria provided, multiple submitters\")\nclinvar_last_evaluated: Date of last ClinVar evaluation\ngnomad_af: Allele frequency in gnomAD (population prevalence)\ngnomad_ac: Allele count in gnomAD\ngnomad_an: Total allele number in gnomAD\nfetched_at: When this data was retrieved from ClinVar/gnomAD"
      },
      {
        "title": "ClinVar Significance Values",
        "body": "Pathogenic: Strong evidence for disease causation\nLikely pathogenic: Moderate evidence for disease causation\nBenign: Strong evidence of no disease causation\nLikely benign: Moderate evidence of no disease causation\nUncertain significance: Insufficient evidence\nConflicting interpretations: Disagreement among submitters"
      },
      {
        "title": "gnomAD Frequency Interpretation",
        "body": "af < 0.0001: Very rare (< 0.01%)\naf < 0.001: Rare (< 0.1%)\naf < 0.01: Uncommon (< 1%)\naf >= 0.01: Common (>= 1%)"
      },
      {
        "title": "Rate Limits",
        "body": "Anonymous (no API key): 10 requests/minute\nWith API key: 100 requests/minute\n\nTo use an API key, set the CLARITY_API_KEY environment variable:\n\nexport CLARITY_API_KEY=your_key_here\npython scripts/query_clinical.py --gene-symbol MAPT\n\nGet your API key at https://clarityprotocol.io"
      },
      {
        "title": "Error Handling",
        "body": "404 Not Found: The specified gene/variant combination does not exist in the clinical database.\n\n429 Rate Limit: You've exceeded the rate limit. The script will display how long to wait.\n\n500 Server Error: The API server encountered an error. Try again later.\n\nTimeout: The request took longer than 30 seconds."
      },
      {
        "title": "Pagination",
        "body": "Clinical variant lists are paginated. The API returns a next_cursor field if more results are available."
      },
      {
        "title": "Use Cases",
        "body": "Check if a variant is pathogenic in ClinVar\nGet population frequency data for a mutation\nCompare clinical significance across variants in a gene\nAssess variant review status quality\nFilter common vs. rare variants using gnomAD"
      }
    ],
    "body": "Clarity Clinical Skill\n\nAccess clinical variant annotations from ClinVar and population frequency data from gnomAD through Clarity Protocol's integrated database.\n\nQuick Start\n\nList all clinical variants:\n\npython scripts/query_clinical.py\n\n\nFilter by gene symbol:\n\npython scripts/query_clinical.py --gene-symbol MAPT\n\n\nGet details for a specific variant:\n\npython scripts/query_clinical.py --gene MAPT --variant NM_005910.6:c.926C>T\n\n\nGet variant details in readable format:\n\npython scripts/query_clinical.py --gene MAPT --variant NM_005910.6:c.926C>T --format summary\n\nClinical Variant Fields\n\nEach clinical variant includes:\n\ngene_symbol: HGNC gene symbol\nvariant_notation: Full HGVS notation (transcript-based)\nclinvar_significance: Clinical significance classification (e.g., \"Pathogenic\", \"Benign\")\nclinvar_review_status: Review status stars (e.g., \"criteria provided, multiple submitters\")\nclinvar_last_evaluated: Date of last ClinVar evaluation\ngnomad_af: Allele frequency in gnomAD (population prevalence)\ngnomad_ac: Allele count in gnomAD\ngnomad_an: Total allele number in gnomAD\nfetched_at: When this data was retrieved from ClinVar/gnomAD\nClinVar Significance Values\nPathogenic: Strong evidence for disease causation\nLikely pathogenic: Moderate evidence for disease causation\nBenign: Strong evidence of no disease causation\nLikely benign: Moderate evidence of no disease causation\nUncertain significance: Insufficient evidence\nConflicting interpretations: Disagreement among submitters\ngnomAD Frequency Interpretation\naf < 0.0001: Very rare (< 0.01%)\naf < 0.001: Rare (< 0.1%)\naf < 0.01: Uncommon (< 1%)\naf >= 0.01: Common (>= 1%)\nRate Limits\nAnonymous (no API key): 10 requests/minute\nWith API key: 100 requests/minute\n\nTo use an API key, set the CLARITY_API_KEY environment variable:\n\nexport CLARITY_API_KEY=your_key_here\npython scripts/query_clinical.py --gene-symbol MAPT\n\n\nGet your API key at https://clarityprotocol.io\n\nError Handling\n\n404 Not Found: The specified gene/variant combination does not exist in the clinical database.\n\n429 Rate Limit: You've exceeded the rate limit. The script will display how long to wait.\n\n500 Server Error: The API server encountered an error. Try again later.\n\nTimeout: The request took longer than 30 seconds.\n\nPagination\n\nClinical variant lists are paginated. The API returns a next_cursor field if more results are available.\n\nUse Cases\nCheck if a variant is pathogenic in ClinVar\nGet population frequency data for a mutation\nCompare clinical significance across variants in a gene\nAssess variant review status quality\nFilter common vs. rare variants using gnomAD"
  },
  "trust": {
    "sourceLabel": "tencent",
    "provenanceUrl": "https://clawhub.ai/clarityprotocol/clarity-clinical",
    "publisherUrl": "https://clawhub.ai/clarityprotocol/clarity-clinical",
    "owner": "clarityprotocol",
    "version": "1.0.0",
    "license": null,
    "verificationStatus": "Indexed source record"
  },
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