{
  "id": "skill_4aec92a664ad4b63baaf2b4981daa277",
  "name": "coexpression-network",
  "description": "Build gene co-expression networks to identify modules and hub genes from RNA-seq data.",
  "category": "transcriptomics",
  "owner_type": "system",
  "created_by_name": "Phylo",
  "verified": false,
  "icon": "flask",
  "keywords": [],
  "default_message": "Build a co-expression network to identify gene modules and hub genes from my RNA-seq data . .",
  "created_at": "2026-04-29T03:43:33.453000",
  "updated_at": "2026-06-02T00:55:59.833000",
  "entrypoint": "SKILL.md",
  "supporting_files": {
    "references/2008_WGCNA an R package for weighted correlation network analysis.pdf": {
      "size": 1700131,
      "type": "pdf",
      "modified": 1777001732,
      "can_edit": false,
      "editor_kind": null
    },
    "references/2021_WGCNA Gene Correlation Network Analysis - Bioinformatics Workbook.pdf": {
      "size": 1472347,
      "type": "pdf",
      "modified": 1777001732,
      "can_edit": false,
      "editor_kind": null
    },
    "references/parameter-tuning-guide.md": {
      "size": 15404,
      "type": "md",
      "modified": 1777001732,
      "can_edit": false,
      "editor_kind": null
    },
    "references/troubleshooting.md": {
      "size": 10807,
      "type": "md",
      "modified": 1777001732,
      "can_edit": false,
      "editor_kind": null
    },
    "references/wgcna-best-practices.md": {
      "size": 15638,
      "type": "md",
      "modified": 1777001732,
      "can_edit": false,
      "editor_kind": null
    },
    "references/wgcna-reference.md": {
      "size": 14969,
      "type": "md",
      "modified": 1777001732,
      "can_edit": false,
      "editor_kind": null
    },
    "scripts/build_network.R": {
      "size": 1269,
      "type": "R",
      "modified": 1777001732,
      "can_edit": false,
      "editor_kind": null
    },
    "scripts/correlate_modules_traits.R": {
      "size": 2786,
      "type": "R",
      "modified": 1777001732,
      "can_edit": false,
      "editor_kind": null
    },
    "scripts/export_wgcna_results.R": {
      "size": 4480,
      "type": "R",
      "modified": 1777001732,
      "can_edit": false,
      "editor_kind": null
    },
    "scripts/identify_hub_genes.R": {
      "size": 1958,
      "type": "R",
      "modified": 1777001732,
      "can_edit": false,
      "editor_kind": null
    },
    "scripts/load_example_data.R": {
      "size": 7444,
      "type": "R",
      "modified": 1777001732,
      "can_edit": false,
      "editor_kind": null
    },
    "scripts/module_enrichment.R": {
      "size": 5033,
      "type": "R",
      "modified": 1777001732,
      "can_edit": false,
      "editor_kind": null
    },
    "scripts/pick_soft_power.R": {
      "size": 2452,
      "type": "R",
      "modified": 1777001732,
      "can_edit": false,
      "editor_kind": null
    },
    "scripts/plot_all_wgcna.R": {
      "size": 4065,
      "type": "R",
      "modified": 1777001732,
      "can_edit": false,
      "editor_kind": null
    },
    "scripts/plot_eigengene_heatmap.R": {
      "size": 1801,
      "type": "R",
      "modified": 1777001732,
      "can_edit": false,
      "editor_kind": null
    },
    "scripts/plot_hub_genes.R": {
      "size": 2325,
      "type": "R",
      "modified": 1777001732,
      "can_edit": false,
      "editor_kind": null
    },
    "scripts/plot_module_dendrogram.R": {
      "size": 1408,
      "type": "R",
      "modified": 1777001732,
      "can_edit": false,
      "editor_kind": null
    },
    "scripts/plotting_helpers.R": {
      "size": 2930,
      "type": "R",
      "modified": 1777001732,
      "can_edit": false,
      "editor_kind": null
    },
    "scripts/prepare_wgcna_data.R": {
      "size": 2548,
      "type": "R",
      "modified": 1777001732,
      "can_edit": false,
      "editor_kind": null
    },
    "scripts/wgcna_workflow.R": {
      "size": 3586,
      "type": "R",
      "modified": 1777001732,
      "can_edit": false,
      "editor_kind": null
    }
  },
  "_category_display": "Transcriptomics"
}