{
  "id": "lib-process:bioinformatics--reproducible-research",
  "_kind": "LibraryProcess",
  "_file": "generated-library/processes.yaml",
  "_cluster": "generated-library",
  "attributes": {
    "displayName": "specializations/domains/science/bioinformatics/reproducible-research",
    "description": "Reproducible Research Workflows - Developing portable, reproducible bioinformatics\nworkflows using workflow managers (Nextflow, Snakemake) with containerization and versioning.",
    "libraryPath": "library/specializations/domains/science/bioinformatics/reproducible-research.js",
    "specialization": "bioinformatics",
    "references": [
      "- Nextflow: https://www.nextflow.io/",
      "- Snakemake: https://snakemake.readthedocs.io/",
      "- nf-core: https://nf-co.re/",
      "- BioContainers: https://biocontainers.pro/",
      "- Conda/Bioconda: https://bioconda.github.io/"
    ],
    "example": "const result = await orchestrate('specializations/domains/science/bioinformatics/reproducible-research', {\n  projectName: 'WGS Reproducible Pipeline',\n  workflowType: 'nextflow',\n  tools: ['bwa-mem2', 'gatk4', 'bcftools'],\n  containerEngine: 'docker'\n});",
    "usesAgents": [
      "general-purpose"
    ]
  },
  "outgoingEdges": [
    {
      "from": "lib-process:bioinformatics--reproducible-research",
      "to": "skill-area:data-analysis",
      "kind": "lib_requires_skill_area",
      "attributes": {
        "weight": 1
      }
    },
    {
      "from": "lib-process:bioinformatics--reproducible-research",
      "to": "skill-area:statistical-analysis",
      "kind": "lib_requires_skill_area",
      "attributes": {
        "weight": 0.7
      }
    },
    {
      "from": "lib-process:bioinformatics--reproducible-research",
      "to": "skill-area:python-data-pipelines",
      "kind": "lib_requires_skill_area",
      "attributes": {
        "weight": 0.5
      }
    },
    {
      "from": "lib-process:bioinformatics--reproducible-research",
      "to": "domain:bioinformatics",
      "kind": "lib_applies_to_domain",
      "attributes": {
        "weight": 1
      }
    },
    {
      "from": "lib-process:bioinformatics--reproducible-research",
      "to": "role:research-engineer",
      "kind": "lib_involves_role",
      "attributes": {
        "weight": 1
      }
    },
    {
      "from": "lib-process:bioinformatics--reproducible-research",
      "to": "role:biomedical-engineer",
      "kind": "lib_involves_role",
      "attributes": {
        "weight": 0.7
      }
    },
    {
      "from": "lib-process:bioinformatics--reproducible-research",
      "to": "workflow:experiment-design",
      "kind": "lib_implements_workflow",
      "attributes": {
        "weight": 1
      }
    },
    {
      "from": "lib-process:bioinformatics--reproducible-research",
      "to": "specialization:biomedical-informatics",
      "kind": "lib_belongs_to_specialization",
      "attributes": {
        "weight": 1
      }
    },
    {
      "from": "lib-process:bioinformatics--reproducible-research",
      "to": "specialization:bioinformatics",
      "kind": "lib_belongs_to_specialization",
      "attributes": {
        "weight": 0.9
      }
    }
  ],
  "incomingEdges": []
}