{
  "id": "lib-process:bioinformatics--tumor-molecular-profiling",
  "_kind": "LibraryProcess",
  "_file": "generated-library/processes.yaml",
  "_cluster": "generated-library",
  "attributes": {
    "displayName": "specializations/domains/science/bioinformatics/tumor-molecular-profiling",
    "description": "Tumor Molecular Profiling - Comprehensive molecular characterization of tumors for precision\noncology including somatic mutation calling, copy number analysis, fusion detection, and biomarker assessment.",
    "libraryPath": "library/specializations/domains/science/bioinformatics/tumor-molecular-profiling.js",
    "specialization": "bioinformatics",
    "references": [
      "- GATK Somatic: https://gatk.broadinstitute.org/hc/en-us/articles/360035894731-Somatic-short-variant-discovery-SNVs-Indels-",
      "- OncoKB: https://www.oncokb.org/",
      "- COSMIC: https://cancer.sanger.ac.uk/cosmic",
      "- CIViC: https://civicdb.org/"
    ],
    "example": "const result = await orchestrate('specializations/domains/science/bioinformatics/tumor-molecular-profiling', {\n  projectName: 'Oncology Patient Case',\n  tumorSample: { id: 'TUMOR001', bam: '/data/tumor.bam' },\n  normalSample: { id: 'NORMAL001', bam: '/data/normal.bam' },\n  panelType: 'WES'\n});",
    "usesAgents": [
      "general-purpose"
    ]
  },
  "outgoingEdges": [
    {
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      "to": "skill-area:data-analysis",
      "kind": "lib_requires_skill_area",
      "attributes": {
        "weight": 1
      }
    },
    {
      "from": "lib-process:bioinformatics--tumor-molecular-profiling",
      "to": "skill-area:statistical-analysis",
      "kind": "lib_requires_skill_area",
      "attributes": {
        "weight": 0.7
      }
    },
    {
      "from": "lib-process:bioinformatics--tumor-molecular-profiling",
      "to": "skill-area:python-data-pipelines",
      "kind": "lib_requires_skill_area",
      "attributes": {
        "weight": 0.5
      }
    },
    {
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      "to": "domain:bioinformatics",
      "kind": "lib_applies_to_domain",
      "attributes": {
        "weight": 1
      }
    },
    {
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      "to": "role:research-engineer",
      "kind": "lib_involves_role",
      "attributes": {
        "weight": 1
      }
    },
    {
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      "to": "role:biomedical-engineer",
      "kind": "lib_involves_role",
      "attributes": {
        "weight": 0.7
      }
    },
    {
      "from": "lib-process:bioinformatics--tumor-molecular-profiling",
      "to": "workflow:experiment-design",
      "kind": "lib_implements_workflow",
      "attributes": {
        "weight": 1
      }
    },
    {
      "from": "lib-process:bioinformatics--tumor-molecular-profiling",
      "to": "specialization:biomedical-informatics",
      "kind": "lib_belongs_to_specialization",
      "attributes": {
        "weight": 1
      }
    },
    {
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      "to": "specialization:bioinformatics",
      "kind": "lib_belongs_to_specialization",
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      }
    }
  ],
  "incomingEdges": []
}