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  "Package": "EnrichmentBrowser",
  "Version": "2.43.0",
  "Date": "2025-09-14",
  "Title": "Seamless navigation through combined results of set-based and\nnetwork-based enrichment analysis",
  "Authors@R": "c(\nperson(\"Ludwig\", \"Geistlinger\", role= c(\"aut\", \"cre\"),\nemail = \"ludwig.geistlinger@gmail.com\"),\nperson(\"Gergely\", \"Csaba\", role = \"aut\"),\nperson(\"Mara\", \"Santarelli\", role=\"ctb\"),\nperson(\"Mirko\", \"Signorelli\", role=\"ctb\"),\nperson(\"Rohit\",\"Satyam\", role=\"ctb\"),\nperson(\"Marcel\", \"Ramos\", role = \"ctb\"),\nperson(\"Levi\",\"Waldron\", role=\"ctb\"),\nperson(\"Ralf\",\"Zimmer\", role=\"aut\"))",
  "Description": "The EnrichmentBrowser package implements essential\nfunctionality for the enrichment analysis of gene expression\ndata. The analysis combines the advantages of set-based and\nnetwork-based enrichment analysis in order to derive\nhigh-confidence gene sets and biological pathways that are\ndifferentially regulated in the expression data under\ninvestigation. Besides, the package facilitates the\nvisualization and exploration of such sets and pathways.",
  "License": "Artistic-2.0",
  "BugReports": "https://github.com/lgeistlinger/EnrichmentBrowser/issues",
  "Encoding": "UTF-8",
  "VignetteBuilder": "knitr",
  "biocViews": "ImmunoOncology, Microarray, RNASeq, GeneExpression,\nDifferentialExpression, Pathways, GraphAndNetwork, Network,\nGeneSetEnrichment, NetworkEnrichment, Visualization,\nReportWriting",
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  "Repository": "https://bioc.r-universe.dev",
  "Date/Publication": "2026-04-28 12:39:45 UTC",
  "RemoteUrl": "https://github.com/bioc/EnrichmentBrowser",
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    "User": "root"
  },
  "Author": "Ludwig Geistlinger [aut, cre],\nGergely Csaba [aut],\nMara Santarelli [ctb],\nMirko Signorelli [ctb],\nRohit Satyam [ctb],\nMarcel Ramos [ctb],\nLevi Waldron [ctb],\nRalf Zimmer [aut]",
  "Maintainer": "Ludwig Geistlinger <ludwig.geistlinger@gmail.com>",
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  "_created": "2026-10-24T09:06:49.000Z",
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    "sbeaMethods",
    "showAvailableCollections",
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      "title": "Combining enrichment analysis results",
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        "combResults"
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        "compileGRN"
      ]
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      "title": "Configuring the EnrichmentBrowser",
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        "configEBrowser"
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      "title": "Differential expression analysis between two sample groups",
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        "deAna"
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        "downloadPathways"
      ]
    },
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      "title": "Exploration of enrichment analysis results",
      "topics": [
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        "eaBrowse",
        "gs.ranking",
        "gsRanking"
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      "title": "Seamless navigation through enrichment analysis results",
      "topics": [
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      ]
    },
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      "title": "Export results from set- and network-based enrichment analysis",
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      ]
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        "get.kegg.genesets",
        "getGenesets",
        "parse.genesets.from.GMT",
        "showAvailableCollections",
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      "title": "Seamless navigation through combined results of set- & network-based enrichment analysis",
      "author": "Ludwig Geistlinger",
      "engine": "knitr::rmarkdown",
      "headings": [
        "Introduction",
        "Reading expression data from file",
        "Types of expression data",
        "Microarray data",
        "RNA-seq data",
        "Normalization",
        "Differential expression",
        "ID mapping",
        "Enrichment analysis",
        "Obtaining gene sets",
        "Set-based enrichment analysis",
        "Guidelines for input and method selection",
        "Result exploration",
        "Network-based enrichment analysis",
        "User-defined enrichment methods",
        "Combining results",
        "Putting it all together",
        "Advanced: configuration parameters",
        "For non-R users: command line invocation",
        "A primer on terminology and statistical theory",
        "Where does it all come from?",
        "Gene sets, pathways & regulatory networks",
        "Resources",
        "Gene set analysis vs. gene set enrichment analysis",
        "Underlying null: competitive vs. self-contained",
        "Generations: ora, fcs & topology-based",
        "Frequently asked questions",
        "References"
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      "modified": "2025-08-27 02:46:53",
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