{
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  "Type": "Package",
  "Title": "Open-Source Software for 'Omic' Data Analysis and Visualization",
  "Description": "A tool for interactive exploration of the results from\n'omics' experiments to facilitate novel discoveries from\nhigh-throughput biology. The software includes R functions for\nthe 'bioinformatician' to deposit study metadata and the\noutputs from statistical analyses (e.g. differential\nexpression, enrichment). These results are then exported to an\ninteractive JavaScript dashboard that can be interrogated on\nthe user's local machine or deployed online to be explored by\ncollaborators. The dashboard includes 'sortable' tables,\ninteractive plots including network visualization, and\nfine-grained filtering based on statistical significance.",
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  "Authors@R": "c(\nperson(\"Terrence\", \"Ernst\", role = c(\"aut\"),\ncomment = \"Web application\"),\nperson(\"John\", \"Blischak\", role = c(\"aut\"),\nemail = \"jdblischak@gmail.com\",\ncomment = c(ORCID = \"0000-0003-2634-9879\")),\nperson(\"Paul\", \"Nordlund\", role = c(\"aut\"),\ncomment = \"Web application\"),\nperson(\"Justin\", \"Moore\", role = c(\"aut\"),\ncomment = \"UpSet-related functions and web application\"),\nperson(\"Joe\", \"Dalen\", role = c(\"aut\"),\ncomment = \"Barcode functionality and web application\"),\nperson(\"Akshay\", \"Bhamidipati\", role = c(\"aut\"),\ncomment = \"Web application\"),\nperson(\"Brett\", \"Engelmann\", role = c(\"aut\", \"cre\"),\nemail = \"brett.engelmann@abbvie.com\"),\nperson(\"Marco\", \"Curado\", role = c(\"aut\"),\ncomment = \"Improved plotting capabilities\"),\nperson(\"Joe\", \"LoGrasso\", role = c(\"aut\"),\ncomment = \"Support for plotly\"),\nperson(\"Elyse\", \"Geoffroy\", role = c(\"ctb\")),\nperson(given = \"AbbVie Inc.\", role = c(\"cph\", \"fnd\"))\n)",
  "URL": "https://github.com/abbvie-external/OmicNavigator",
  "BugReports": "https://github.com/abbvie-external/OmicNavigator/issues",
  "License": "MIT + file LICENSE",
  "License_restricts_use": "no",
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  "Encoding": "UTF-8",
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  "Roxygen": "list(markdown = TRUE)",
  "Repository": "https://abbvie-external.r-universe.dev",
  "Date/Publication": "2026-02-25 04:37:53 UTC",
  "RemoteUrl": "https://github.com/abbvie-external/omicnavigator",
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  "Author": "Terrence Ernst [aut] (Web application),\nJohn Blischak [aut] (ORCID: <https://orcid.org/0000-0003-2634-9879>),\nPaul Nordlund [aut] (Web application),\nJustin Moore [aut] (UpSet-related functions and web application),\nJoe Dalen [aut] (Barcode functionality and web application),\nAkshay Bhamidipati [aut] (Web application),\nBrett Engelmann [aut, cre],\nMarco Curado [aut] (Improved plotting capabilities),\nJoe LoGrasso [aut] (Support for plotly),\nElyse Geoffroy [ctb],\nAbbVie Inc. [cph, fnd]",
  "Maintainer": "Brett Engelmann <brett.engelmann@abbvie.com>",
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    "omics",
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    "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/OmicNavigator"
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    "extra/NEWS.txt",
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    "extra/readme.html",
    "extra/readme.md",
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    "addAnnotations",
    "addAssays",
    "addBarcodes",
    "addEnrichments",
    "addEnrichmentsLinkouts",
    "addFeatures",
    "addMapping",
    "addMetaAssays",
    "addMetaFeatures",
    "addMetaFeaturesLinkouts",
    "addModels",
    "addObjects",
    "addOverlaps",
    "addPlots",
    "addReports",
    "addResults",
    "addResultsLinkouts",
    "addSamples",
    "addTests",
    "combineStudies",
    "createStudy",
    "exportStudy",
    "getAnnotations",
    "getAssays",
    "getBarcodeData",
    "getBarcodes",
    "getEnrichments",
    "getEnrichmentsAnnotations",
    "getEnrichmentsIntersection",
    "getEnrichmentsLinkouts",
    "getEnrichmentsModels",
    "getEnrichmentsNetwork",
    "getEnrichmentsStudies",
    "getEnrichmentsTable",
    "getEnrichmentsUpset",
    "getFavicons",
    "getFeatures",
    "getInstalledStudies",
    "getLinkFeatures",
    "getMapping",
    "getMetaAssays",
    "getMetaFeatures",
    "getMetaFeaturesLinkouts",
    "getMetaFeaturesTable",
    "getModels",
    "getNodeFeatures",
    "getObjects",
    "getOverlaps",
    "getPackageVersion",
    "getPlots",
    "getPlottingData",
    "getReportLink",
    "getReports",
    "getResults",
    "getResultsIntersection",
    "getResultsLinkouts",
    "getResultsModels",
    "getResultsStudies",
    "getResultsTable",
    "getResultsTests",
    "getResultsUpset",
    "getSamples",
    "getStudyMeta",
    "getTests",
    "getUpsetCols",
    "hasTerms",
    "importStudy",
    "installApp",
    "installStudy",
    "plotStudy",
    "removeStudy",
    "startApp",
    "validateStudy"
  ],
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      "title": "Mm.c2 from Bioconductor workflow RNAseq123",
      "object": "RNAseq123",
      "class": [
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      "table": false,
      "tojson": true
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      "table": true,
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      "title": "basal.vs.ml from Bioconductor workflow RNAseq123",
      "object": "RNAseq123",
      "class": [
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      ],
      "fields": [
        "ENTREZID",
        "SYMBOL",
        "TXCHROM",
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        "t",
        "P.Value",
        "adj.P.Val"
      ],
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      "table": true,
      "tojson": true
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      "object": "RNAseq123",
      "class": [
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      ],
      "fields": [
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        "PValue",
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      "table": true,
      "tojson": true
    },
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      "name": "cam.BasalvsML",
      "title": "cam.BasalvsML from Bioconductor workflow RNAseq123",
      "object": "RNAseq123",
      "class": [
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        "PValue",
        "FDR"
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      "table": true,
      "tojson": true
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    {
      "name": "group",
      "title": "group from Bioconductor workflow RNAseq123",
      "object": "RNAseq123",
      "class": [
        "factor"
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      "fields": [],
      "table": false,
      "tojson": true
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      "title": "lane from Bioconductor workflow RNAseq123",
      "object": "RNAseq123",
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      "table": false,
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        "9_6_5_11",
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        "JMS9-P8c"
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      "table": true,
      "tojson": true
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    {
      "name": "samplenames",
      "title": "samplenames from Bioconductor workflow RNAseq123",
      "object": "RNAseq123",
      "class": [
        "character"
      ],
      "fields": [],
      "table": false,
      "tojson": true
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  ],
  "_help": [
    {
      "page": "OmicNavigator-package",
      "title": "OmicNavigator",
      "topics": [
        "OmicNavigator-package",
        "OmicNavigator"
      ]
    },
    {
      "page": "addAnnotations",
      "title": "Add annotations",
      "topics": [
        "addAnnotations"
      ]
    },
    {
      "page": "addAssays",
      "title": "Add assays",
      "topics": [
        "addAssays"
      ]
    },
    {
      "page": "addBarcodes",
      "title": "Add barcode plot metadata",
      "topics": [
        "addBarcodes"
      ]
    },
    {
      "page": "addEnrichments",
      "title": "Add enrichment results",
      "topics": [
        "addEnrichments"
      ]
    },
    {
      "page": "addEnrichmentsLinkouts",
      "title": "Add linkouts to external resources in the enrichments table",
      "topics": [
        "addEnrichmentsLinkouts"
      ]
    },
    {
      "page": "addFeatures",
      "title": "Add feature metadata",
      "topics": [
        "addFeatures"
      ]
    },
    {
      "page": "addMapping",
      "title": "Add mapping object",
      "topics": [
        "addMapping"
      ]
    },
    {
      "page": "addMetaAssays",
      "title": "Add metaAssays",
      "topics": [
        "addMetaAssays"
      ]
    },
    {
      "page": "addMetaFeatures",
      "title": "Add meta-feature metadata",
      "topics": [
        "addMetaFeatures"
      ]
    },
    {
      "page": "addMetaFeaturesLinkouts",
      "title": "Add linkouts to external resources in the metaFeatures table",
      "topics": [
        "addMetaFeaturesLinkouts"
      ]
    },
    {
      "page": "addModels",
      "title": "Add models",
      "topics": [
        "addModels"
      ]
    },
    {
      "page": "addObjects",
      "title": "Add objects",
      "topics": [
        "addObjects"
      ]
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