{
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  "Package": "iSEEde",
  "Title": "iSEE extension for panels related to differential expression\nanalysis",
  "Version": "1.11.0",
  "Date": "2024-10-01",
  "Authors@R": "c(person(\"Kevin\", \"Rue-Albrecht\", email = \"kevinrue67@gmail.com\",\nrole = c(\"aut\", \"cre\"),\ncomment = c(ORCID = \"0000-0003-3899-3872\")),\nperson(\"Thomas\", \"Sandmann\", email = \"tomsing1@gmail.com\",\nrole = c(\"ctb\"),\ncomment = c(ORCID = \"0000-0002-6601-8890\")),\nperson(\"Denali Therapeutics\", role = c(\"fnd\")))",
  "Description": "This package contains diverse functionality to extend the\nusage of the iSEE package, including additional classes for the\npanels or modes facilitating the analysis of differential\nexpression results. This package does not perform differential\nexpression. Instead, it provides methods to embed precomputed\ndifferential expression results in a SummarizedExperiment\nobject, in a manner that is compatible with interactive\nvisualisation in iSEE applications.",
  "License": "Artistic-2.0",
  "URL": "https://github.com/iSEE/iSEEde",
  "BugReports": "https://support.bioconductor.org/t/iSEEde",
  "biocViews": "Software, Infrastructure, DifferentialExpression",
  "Encoding": "UTF-8",
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  "Repository": "https://bioc.r-universe.dev",
  "Date/Publication": "2026-04-28 13:01:20 UTC",
  "RemoteUrl": "https://github.com/bioc/iSEEde",
  "RemoteRef": "HEAD",
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  "NeedsCompilation": "no",
  "Packaged": {
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    "User": "root"
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  "Author": "Kevin Rue-Albrecht [aut, cre] (ORCID:\n<https://orcid.org/0000-0003-3899-3872>),\nThomas Sandmann [ctb] (ORCID: <https://orcid.org/0000-0002-6601-8890>),\nDenali Therapeutics [fnd]",
  "Maintainer": "Kevin Rue-Albrecht <kevinrue67@gmail.com>",
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  "_user": "bioc",
  "_type": "src",
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  "_created": "2026-05-30T07:56:14.000Z",
  "_published": "2026-05-30T11:31:57.316Z",
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    "author": "A Wokaty <andres.wokaty@sph.cuny.edu>",
    "committer": "A Wokaty <andres.wokaty@sph.cuny.edu>",
    "message": "bump x.y.z version to odd y following creation of RELEASE_3_23 branch\n",
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      "package": "iSEE",
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      "n": 2
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    "name": "Bioconductor",
    "description": "Software for the analysis and comprehension of high-throughput genomic data"
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    "source": "https://www.bioconductor.org/packages/stats/bioc/iSEEde"
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  "_realowner": "bioc",
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    ".refineParameters",
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    "contrastResultsNames",
    "DETable",
    "embedContrastResults",
    "embedContrastResultsMethods",
    "initialize",
    "iSEEDESeq2Results",
    "iSEEedgeRResults",
    "iSEELimmaResults",
    "log2FoldChange",
    "LogFCLogFCPlot",
    "MAPlot",
    "pValue",
    "VolcanoPlot"
  ],
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      "title": "Extract contrast results embedded in a SummarizedExperiment object",
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        "contrastResultsNames"
      ]
    },
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      "page": "de-generics",
      "title": "Generics for Differential Expression Results",
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        "de-generics",
        "log2FoldChange",
        "pValue"
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      "title": "The DETable class",
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        ".createObservers,DETable-method",
        ".defineDataInterface,DETable-method",
        ".fullName,DETable-method",
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      ]
    },
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      "page": "iSEEDESeq2Results-class",
      "title": "The iSEEDESeq2Results class",
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        "embedContrastResults,DESeqResults-method",
        "embedContrastResults,iSEEDESeq2Results-method",
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      "page": "iSEEedgeRResults-class",
      "title": "The iSEEedgeRResults class",
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        "embedContrastResults,iSEEedgeRResults-method",
        "embedContrastResults,TopTags-method",
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        "showAsCell,iSEEedgeRResults-method"
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    },
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      "page": "iSEELimmaResults-class",
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        "embedContrastResults,iSEELimmaResults-method",
        "iSEELimmaResults",
        "iSEELimmaResults-class",
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        "pValue,iSEELimmaResults-method",
        "showAsCell,iSEELimmaResults-method"
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    },
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        ".createObservers,LogFCLogFCPlot-method",
        ".defineDataInterface,LogFCLogFCPlot-method",
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        ".defineDataInterface,MAPlot-method",
        ".fullName,MAPlot-method",
        ".generateDotPlotData,MAPlot-method",
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        ".refineParameters,MAPlot-method",
        "initialize,MAPlot-method",
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        "embedContrastResults,ANY-method",
        "embedContrastResults,data.frame-method",
        "embedContrastResultsMethods",
        "utils-SummarizedExperiment"
      ]
    },
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        ".createObservers,VolcanoPlot-method",
        ".defineDataInterface,VolcanoPlot-method",
        ".fullName,VolcanoPlot-method",
        ".generateDotPlotData,VolcanoPlot-method",
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