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  "Package": "MiRSEA",
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  "Version": "1.1",
  "Date": "2015-06-30",
  "Title": "'MicroRNA' Set Enrichment Analysis",
  "Author": "Junwei Han, Siyao Liu",
  "Maintainer": "Junwei Han <hanjunwei1981@163.com>",
  "Description": "The tools for 'MicroRNA Set Enrichment Analysis' can\nidentify risk pathways(or prior gene sets) regulated by\nmicroRNA set in the context of microRNA expression data. (1)\nThis package constructs a correlation profile of microRNA and\npathways by the hypergeometric statistic test. The gene sets of\npathways derived from the three public databases (Kyoto\nEncyclopedia of Genes and Genomes ('KEGG'); 'Reactome';\n'Biocarta') and the target gene sets of microRNA are provided\nby four databases('TarBaseV6.0'; 'mir2Disease'; 'miRecords';\n'miRTarBase';). (2) This package can quantify the change of\ncorrelation between microRNA for each pathway(or prior gene\nset) based on a microRNA expression data with cases and\ncontrols. (3) This package uses the weighted Kolmogorov-Smirnov\nstatistic to calculate an enrichment score (ES) of a microRNA\nset that co-regulate to a pathway , which reflects the degree\nto which a given pathway is associated with the specific\nphenotype. (4) This package can provide the visualization of\nthe results.",
  "Collate": "Corrp2miRfile.R EnrichmentScore.R S2N.R MirSEA.R MsReport.R\nGetExampleData.R getEnvironmentData.R GetMiRTargetData.R\nGetPathwayData.R PlotCorrelation.R PlotHeatMap.R\nPlotRunEnrichment.R",
  "LazyData": "Yes",
  "License": "GPL (>= 2)",
  "biocViews": "Statistics, Pathways, microRNA, enrichment analysis",
  "Packaged": {
    "Date": "2026-10-09 12:28:40 UTC",
    "User": "root"
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  "NeedsCompilation": "no",
  "Repository": "https://hanjunwei-lab.r-universe.dev",
  "Date/Publication": "2020-06-30 13:18:48 UTC",
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    "pathways",
    "microrna",
    "enrichment analysis"
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    "extra/citation.json",
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    "extra/contents.json",
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    "extra/MiRSEA.html",
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    "extra/readme.md",
    "LICENSE"
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  "_realowner": "hanjunwei-lab",
  "_cranurl": true,
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      "date": "2015-05-31"
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    "EnrichmentScore",
    "EnrichmentScore2",
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    "GetExampleData",
    "GetMiRTargetData",
    "GetPathwayData",
    "HeatMapPlot",
    "initializeMiRSEA",
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    "PlotCorrelation",
    "PlotHeatMap",
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    "S2N"
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      "title": "The variables in the environment include predefine pathway, target information of miRNAs,an expression profile and a example result of miRNA list",
      "object": "envData",
      "class": [
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      "fields": [],
      "table": false,
      "tojson": false
    }
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    {
      "page": "MiRSEA-package",
      "title": "MicroRNA Set Enrichment Analysis",
      "topics": [
        "MiRSEA-package",
        "MiRSEA"
      ]
    },
    {
      "page": "Corrp2miRfile",
      "title": "create a pathway-microRNA(miRNA) profile and a p value matrix",
      "topics": [
        "Corrp2miRfile"
      ]
    },
    {
      "page": "EnrichmentScore",
      "title": "Computes the enrichment score",
      "topics": [
        "EnrichmentScore"
      ]
    },
    {
      "page": "EnrichmentScore2",
      "title": "Computes the enrichment score faster",
      "topics": [
        "EnrichmentScore2"
      ]
    },
    {
      "page": "envData",
      "title": "The variables in the environment include predefine pathway, target information of miRNAs,an expression profile and a example result of miRNA list",
      "topics": [
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        "example.cls",
        "example.gct",
        "mfile",
        "miRList",
        "p",
        "p2miR",
        "pathway"
      ]
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    {
      "page": "GetExampleData",
      "title": "Get the example data",
      "topics": [
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      ]
    },
    {
      "page": "GetMiRTargetData",
      "title": "Get the data of microRNA(miRNA) and target genes",
      "topics": [
        "GetMiRTargetData"
      ]
    },
    {
      "page": "GetPathwayData",
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      "title": "Identify dysregulated pathways based on microRNA (miRNA) set enrichment analysis",
      "topics": [
        "MirSEA"
      ]
    },
    {
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      "title": "Produce report for a microRNA (abbreviated miRNA) set",
      "topics": [
        "MsReport"
      ]
    },
    {
      "page": "PlotCorrelation",
      "title": "Plot global microRNA(miRNA) correlation profile",
      "topics": [
        "PlotCorrelation"
      ]
    },
    {
      "page": "PlotHeatMap",
      "title": "Plot a heat map",
      "topics": [
        "PlotHeatMap"
      ]
    },
    {
      "page": "PlotRunEnrichment",
      "title": "Plot running microRNAs(miRNAs) enrichment score",
      "topics": [
        "PlotRunEnrichment"
      ]
    },
    {
      "page": "S2N",
      "title": "calculate signal to noise ratio for microRNAs(miRNAs)",
      "topics": [
        "S2N"
      ]
    }
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      "created": "2020-06-27 10:38:03",
      "modified": "2020-06-27 10:38:03",
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