{
  "id": "lib-process:bioinformatics--scrnaseq-analysis",
  "_kind": "LibraryProcess",
  "_file": "generated-library/processes.yaml",
  "_cluster": "generated-library",
  "attributes": {
    "displayName": "scrnaseq-analysis",
    "description": "Single-Cell RNA-seq Analysis - End-to-end analysis pipeline for single-cell RNA\nsequencing data including quality control, normalization, clustering, cell type annotation,\nand trajectory analysis.",
    "libraryPath": "library/specializations/domains/science/bioinformatics/scrnaseq-analysis.js",
    "specialization": "bioinformatics",
    "references": [
      "- Scanpy: https://scanpy.readthedocs.io/\n- Seurat: https://satijalab.org/seurat/\n- scVI: https://docs.scvi-tools.org/\n- CellTypist: https://www.celltypist.org/\n- Monocle3: https://cole-trapnell-lab.github.io/monocle3/"
    ],
    "example": "const result = await orchestrate('specializations/domains/science/bioinformatics/scrnaseq-analysis', {\n  projectName: 'PBMC Single-Cell Atlas',\n  samples: [{ id: 'sample1', path: '/data/sample1' }],\n  technology: '10X_Chromium',\n  expectedCellTypes: ['T cells', 'B cells', 'Monocytes', 'NK cells']\n});",
    "usesAgents": [
      "general-purpose"
    ]
  },
  "outgoingEdges": [
    {
      "from": "lib-process:bioinformatics--scrnaseq-analysis",
      "to": "skill-area:data-analysis",
      "kind": "lib_requires_skill_area",
      "attributes": {
        "weight": 1
      }
    },
    {
      "from": "lib-process:bioinformatics--scrnaseq-analysis",
      "to": "skill-area:statistical-analysis",
      "kind": "lib_requires_skill_area",
      "attributes": {
        "weight": 0.7
      }
    },
    {
      "from": "lib-process:bioinformatics--scrnaseq-analysis",
      "to": "skill-area:python-data-pipelines",
      "kind": "lib_requires_skill_area",
      "attributes": {
        "weight": 0.5
      }
    },
    {
      "from": "lib-process:bioinformatics--scrnaseq-analysis",
      "to": "domain:bioinformatics",
      "kind": "lib_applies_to_domain",
      "attributes": {
        "weight": 1
      }
    },
    {
      "from": "lib-process:bioinformatics--scrnaseq-analysis",
      "to": "role:research-engineer",
      "kind": "lib_involves_role",
      "attributes": {
        "weight": 1
      }
    },
    {
      "from": "lib-process:bioinformatics--scrnaseq-analysis",
      "to": "role:biomedical-engineer",
      "kind": "lib_involves_role",
      "attributes": {
        "weight": 0.7
      }
    },
    {
      "from": "lib-process:bioinformatics--scrnaseq-analysis",
      "to": "workflow:experiment-design",
      "kind": "lib_implements_workflow",
      "attributes": {
        "weight": 1
      }
    },
    {
      "from": "lib-process:bioinformatics--scrnaseq-analysis",
      "to": "specialization:biomedical-informatics",
      "kind": "lib_belongs_to_specialization",
      "attributes": {
        "weight": 1
      }
    },
    {
      "from": "lib-process:bioinformatics--scrnaseq-analysis",
      "to": "specialization:bioinformatics",
      "kind": "lib_belongs_to_specialization",
      "attributes": {
        "weight": 0.9
      }
    }
  ],
  "incomingEdges": []
}