{
  "_id": "6a1ad5691d7bb097a09e4eb7",
  "Package": "epivizrChart",
  "Title": "R interface to epiviz web components",
  "Version": "1.35.0",
  "Authors@R": "c( person(\"Brian\", \"Gottfried\",\nemail=\"briangottfried@me.com\",\nrole = c(\"aut\")),\nperson(\"Jayaram\", \"Kancherla\",\nemail=\"jayaram.kancherla@gmail.com\",\nrole = c(\"aut\")),\nperson(\"Hector\", \"Corrada Bravo\",\nemail = \"hcorrada@gmail.com\",\nrole = c(\"aut\", \"cre\"))\n)",
  "Description": "This package provides an API for interactive visualization\nof genomic data using epiviz web components. Objects in\nR/BioConductor can be used to generate interactive R\nmarkdown/notebook documents or can be visualized in the R\nStudio's default viewer.",
  "Collate": "'utils.R' 'EpivizChartDataMgr-class.R'\n'EpivizWebComponent-class.R' 'EpivizViewComponent-class.R'\n'EpivizDataSource-class.R' 'EpivizEnvironment-class.R'\n'EpivizChart-class.R' 'EpivizNavigation-class.R'\n'EpivizCharts-classes.R' 'vignette_data.R' 'util-inits.R'\n'generics.R'",
  "VignetteBuilder": "knitr",
  "License": "Artistic-2.0",
  "Encoding": "UTF-8",
  "LazyData": "true",
  "biocViews": "Visualization, GUI",
  "RoxygenNote": "7.1.0",
  "Config/pak/sysreqs": "make libbz2-dev liblzma-dev libpng-dev libxml2-dev\nlibssl-dev xz-utils zlib1g-dev",
  "Repository": "https://bioc.r-universe.dev",
  "Date/Publication": "2026-04-28 12:46:01 UTC",
  "RemoteUrl": "https://github.com/bioc/epivizrChart",
  "RemoteRef": "HEAD",
  "RemoteSha": "28462322442ce7666b207f2b366c1516668e38e6",
  "NeedsCompilation": "no",
  "Packaged": {
    "Date": "2026-05-30 08:42:33 UTC",
    "User": "root"
  },
  "Author": "Brian Gottfried [aut],\nJayaram Kancherla [aut],\nHector Corrada Bravo [aut, cre]",
  "Maintainer": "Hector Corrada Bravo <hcorrada@gmail.com>",
  "MD5sum": "b0eab76cef0c473e9d91258dfa13cea3",
  "_user": "bioc",
  "_type": "src",
  "_file": "epivizrChart_1.35.0.tar.gz",
  "_fileid": "9cccda952d67ed745820bd59be4a8101c727450485238ad543b33ada175c2caa",
  "_filesize": 2900712,
  "_sha256": "9cccda952d67ed745820bd59be4a8101c727450485238ad543b33ada175c2caa",
  "_created": "2026-05-30T08:42:33.000Z",
  "_published": "2026-05-30T12:17:45.336Z",
  "_jobs": [
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      "job": 78637330461,
      "time": 453,
      "config": "bioc-checks",
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  ],
  "_bioccheck": {
    "error": 1,
    "warning": 1,
    "note": 14
  },
  "_buildurl": "https://github.com/r-universe/bioc/actions/runs/26679346988",
  "_status": "success",
  "_host": "GitHub-Actions",
  "_upstream": "https://github.com/bioc/epivizrChart",
  "_commit": {
    "id": "28462322442ce7666b207f2b366c1516668e38e6",
    "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",
    "time": 1777380361
  },
  "_maintainer": {
    "name": "Hector Corrada Bravo",
    "email": "hcorrada@gmail.com",
    "login": "hcorrada",
    "description": "",
    "uuid": 2072476
  },
  "_distro": "noble",
  "_registered": true,
  "_dependencies": [
    {
      "package": "R",
      "version": ">= 3.5.0",
      "role": "Depends"
    },
    {
      "package": "epivizrData",
      "version": ">= 1.5.1",
      "role": "Imports"
    },
    {
      "package": "epivizrServer",
      "role": "Imports"
    },
    {
      "package": "htmltools",
      "role": "Imports"
    },
    {
      "package": "rjson",
      "role": "Imports"
    },
    {
      "package": "methods",
      "role": "Imports"
    },
    {
      "package": "BiocGenerics",
      "role": "Imports"
    },
    {
      "package": "testthat",
      "role": "Suggests"
    },
    {
      "package": "roxygen2",
      "role": "Suggests"
    },
    {
      "package": "knitr",
      "role": "Suggests"
    },
    {
      "package": "Biobase",
      "role": "Suggests"
    },
    {
      "package": "GenomicRanges",
      "role": "Suggests"
    },
    {
      "package": "S4Vectors",
      "role": "Suggests"
    },
    {
      "package": "IRanges",
      "role": "Suggests"
    },
    {
      "package": "SummarizedExperiment",
      "role": "Suggests"
    },
    {
      "package": "antiProfilesData",
      "role": "Suggests"
    },
    {
      "package": "hgu133plus2.db",
      "role": "Suggests"
    },
    {
      "package": "Mus.musculus",
      "role": "Suggests"
    },
    {
      "package": "BiocStyle",
      "role": "Suggests"
    },
    {
      "package": "Homo.sapiens",
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    },
    {
      "package": "shiny",
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    },
    {
      "package": "minfi",
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    },
    {
      "package": "Rsamtools",
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    },
    {
      "package": "rtracklayer",
      "role": "Suggests"
    },
    {
      "package": "RColorBrewer",
      "role": "Suggests"
    },
    {
      "package": "magrittr",
      "role": "Suggests"
    },
    {
      "package": "AnnotationHub",
      "role": "Suggests"
    }
  ],
  "_owner": "bioc",
  "_selfowned": true,
  "_usedby": 0,
  "_updates": [
    {
      "week": "2025-44",
      "n": 2
    },
    {
      "week": "2026-18",
      "n": 2
    }
  ],
  "_tags": [],
  "_bioc": [
    {
      "branch": "devel",
      "version": "1.35.0",
      "bioc": "3.24"
    },
    {
      "branch": "release",
      "version": "1.34.0",
      "bioc": "3.23"
    }
  ],
  "_topics": [
    "visualization",
    "gui"
  ],
  "_userbio": {
    "uuid": 2286807,
    "type": "organization",
    "name": "Bioconductor",
    "description": "Software for the analysis and comprehension of high-throughput genomic data"
  },
  "_downloads": {
    "count": 410,
    "source": "https://www.bioconductor.org/packages/stats/bioc/epivizrChart"
  },
  "_mentions": 1,
  "_searchresults": 12,
  "_rbuild": "4.6.0",
  "_assets": [
    "extra/citation.cff",
    "extra/citation.html",
    "extra/citation.json",
    "extra/citation.txt",
    "extra/contents.json",
    "extra/epivizrChart.html",
    "extra/NEWS.html",
    "extra/NEWS.txt",
    "extra/readme.html",
    "extra/readme.md",
    "manual.pdf"
  ],
  "_realowner": "bioc",
  "_cranurl": false,
  "_exports": [
    "append_region",
    "BlocksTrack",
    "epivizChart",
    "epivizEnv",
    "epivizNav",
    "HeatmapPlot",
    "json_parser",
    "json_writer",
    "LinePlot",
    "LineTrack",
    "plot",
    "ScatterPlot",
    "StackedBlocksTrack",
    "StackedLinePlot",
    "StackedLineTrack"
  ],
  "_datasets": [
    {
      "name": "bcode_eset",
      "title": "Example expression data from the Gene Expression barcode project",
      "object": "bcode_eset",
      "class": [
        "ExpressionSet"
      ],
      "fields": [],
      "table": false,
      "tojson": false
    },
    {
      "name": "cgi_gr",
      "title": "Locations of CpG Islands",
      "object": "cgi_gr",
      "class": [
        "GRanges"
      ],
      "fields": [],
      "table": false,
      "tojson": false
    },
    {
      "name": "sumexp",
      "title": "Example SummarizedExperiment for epivizr vignette",
      "object": "sumexp",
      "class": [
        "RangedSummarizedExperiment"
      ],
      "fields": [],
      "table": false,
      "tojson": false
    },
    {
      "name": "tcga_colon_blocks",
      "title": "Example methylation data (blocks) for epivizr vignette.",
      "object": "tcga_colon_blocks",
      "class": [
        "GRanges"
      ],
      "fields": [],
      "table": false,
      "tojson": false
    },
    {
      "name": "tcga_colon_curves",
      "title": "Example methylation data (smoothed methylation levels) for epivizr vignette",
      "object": "tcga_colon_curves",
      "class": [
        "GRanges"
      ],
      "fields": [],
      "table": false,
      "tojson": false
    },
    {
      "name": "tcga_colon_expression",
      "title": "Example exon-level RNAseq data from TCGA project for epivizr vignette.",
      "object": "tcga_colon_expression",
      "class": [
        "RangedSummarizedExperiment"
      ],
      "fields": [],
      "table": false,
      "tojson": false
    }
  ],
  "_help": [
    {
      "page": "dot-constructURL",
      "title": "Construct URL for Websocket connection between R and UI",
      "topics": [
        ".constructURL"
      ]
    },
    {
      "page": "dot-initialize_chart",
      "title": "Initialize Epiviz Chart based on chart type",
      "topics": [
        ".initialize_chart"
      ]
    },
    {
      "page": "dot-register_all_the_epiviz_things",
      "title": "(taken from epivizr) register epiviz actions",
      "topics": [
        ".register_all_the_epiviz_things"
      ]
    },
    {
      "page": "dot-settings_as_df",
      "title": "(taken from epivizr) print settings in a readable format",
      "topics": [
        ".settings_as_df"
      ]
    },
    {
      "page": "append_region-methods",
      "title": "Generic method to add navigation regions",
      "topics": [
        "append_region",
        "append_region,EpivizEnvironment-method"
      ]
    },
    {
      "page": "bcode_eset",
      "title": "Example expression data from the Gene Expression barcode project",
      "topics": [
        "bcode_eset"
      ]
    },
    {
      "page": "BlocksTrack-methods",
      "title": "Method to add Blocks Track",
      "topics": [
        "BlocksTrack",
        "BlocksTrack,EpivizEnvironment-method"
      ]
    },
    {
      "page": "cgi_gr",
      "title": "Locations of CpG Islands",
      "topics": [
        "cgi_gr"
      ]
    },
    {
      "page": "chart_default_settings_colors",
      "title": "Get default chart settings and colors",
      "topics": [
        "chart_default_settings_colors"
      ]
    },
    {
      "page": "EpivizBlocksTrack-class",
      "title": "Data container for an Epiviz Blocks Track.",
      "topics": [
        "EpivizBlocksTrack",
        "EpivizBlocksTrack-class"
      ]
    },
    {
      "page": "epivizChart",
      "title": "Initialize an 'EpivizChart' object to visualize in viewer or knit to HTML.",
      "topics": [
        "epivizChart"
      ]
    },
    {
      "page": "EpivizChart-class",
      "title": "Data container for an Epiviz chart component.",
      "topics": [
        "EpivizChart",
        "EpivizChart-class"
      ]
    },
    {
      "page": "EpivizChartDataMgr-class",
      "title": "Class providing data manager for epiviz charts.",
      "topics": [
        "EpivizChartDataMgr",
        "EpivizChartDataMgr-class"
      ]
    },
    {
      "page": "EpivizDataSource-class",
      "title": "Data container for an Epiviz Data Source component.",
      "topics": [
        "EpivizDataSource",
        "EpivizDataSource-class"
      ]
    },
    {
      "page": "epivizEnv",
      "title": "Initialize an 'EpivizEnvironment' object.",
      "topics": [
        "epivizEnv"
      ]
    },
    {
      "page": "EpivizEnvironment-class",
      "title": "Data container for an Epiviz environment component.",
      "topics": [
        "EpivizEnvironment",
        "EpivizEnvironment-class"
      ]
    },
    {
      "page": "EpivizGenesTrack-class",
      "title": "Data container for an Epiviz Genes Track.",
      "topics": [
        "EpivizGenesTrack",
        "EpivizGenesTrack-class"
      ]
    },
    {
      "page": "EpivizHeatmapPlot-class",
      "title": "Data container for an Epiviz Heatmap Plot.",
      "topics": [
        "EpivizHeatmapPlot",
        "EpivizHeatmapPlot-class"
      ]
    },
    {
      "page": "EpivizIGVTrack-class",
      "title": "Data container for an Epiviz Genes Track.",
      "topics": [
        "EpivizIGVTrack",
        "EpivizIGVTrack-class"
      ]
    },
    {
      "page": "EpivizLinePlot-class",
      "title": "Data container for an Epiviz Line Plot.",
      "topics": [
        "EpivizLinePlot",
        "EpivizLinePlot-class"
      ]
    },
    {
      "page": "EpivizLineTrack-class",
      "title": "Data container for an Epiviz Line Track.",
      "topics": [
        "EpivizLineTrack",
        "EpivizLineTrack-class"
      ]
    },
    {
      "page": "epivizNav",
      "title": "Initialize an 'EpivizNavigation' object to visualize in viewer or knit to HTML.",
      "topics": [
        "epivizNav"
      ]
    },
    {
      "page": "EpivizNavigation-class",
      "title": "Data container for an Epiviz navigation component.",
      "topics": [
        "EpivizNavigation",
        "EpivizNavigation-class"
      ]
    },
    {
      "page": "EpivizScatterPlot-class",
      "title": "Data container for an Epiviz Scatter Plot.",
      "topics": [
        "EpivizScatterPlot",
        "EpivizScatterPlot-class"
      ]
    },
    {
      "page": "EpivizStackedBlocksTrack-class",
      "title": "Data container for an Epiviz Blocks Track.",
      "topics": [
        "EpivizStackedBlocksTrack",
        "EpivizStackedBlocksTrack-class"
      ]
    },
    {
      "page": "EpivizStackedLinePlot-class",
      "title": "Data container for an Epiviz Stacked Line Plot.",
      "topics": [
        "EpivizStackedLinePlot",
        "EpivizStackedLinePlot-class"
      ]
    },
    {
      "page": "EpivizStackedLineTrack-class",
      "title": "Data container for an Epiviz Stacked Line Track.",
      "topics": [
        "EpivizStackedLineTrack",
        "EpivizStackedLineTrack-class"
      ]
    },
    {
      "page": "EpivizViewComponent-class",
      "title": "Data container for an Epiviz web component.",
      "topics": [
        "EpivizViewComponent",
        "EpivizViewComponent-class"
      ]
    },
    {
      "page": "EpivizWebComponent-class",
      "title": "Data container for an Epiviz Web component.",
      "topics": [
        "EpivizWebComponent",
        "EpivizWebComponent-class"
      ]
    },
    {
      "page": "get_available_chart_types",
      "title": "Construct URL for Websocket connection between R and UI",
      "topics": [
        "get_available_chart_types"
      ]
    },
    {
      "page": "get_registered_data_types",
      "title": "Construct URL for Websocket connection between R and UI",
      "topics": [
        "get_registered_data_types"
      ]
    },
    {
      "page": "HeatmapPlot-methods",
      "title": "Method to add Heatmap Plot",
      "topics": [
        "HeatmapPlot",
        "HeatmapPlot,EpivizEnvironment-method"
      ]
    },
    {
      "page": "json_parser",
      "title": "JSON parser used by this package",
      "topics": [
        "json_parser"
      ]
    },
    {
      "page": "json_writer",
      "title": "JSON writer used by this package",
      "topics": [
        "json_writer"
      ]
    },
    {
      "page": "LinePlot-methods",
      "title": "Method to add Line Plot",
      "topics": [
        "LinePlot",
        "LinePlot,EpivizEnvironment-method"
      ]
    },
    {
      "page": "LineTrack-methods",
      "title": "Method to add Line Track",
      "topics": [
        "LineTrack",
        "LineTrack,EpivizEnvironment-method"
      ]
    },
    {
      "page": "plot-EpivizEnvironment-ANY-method",
      "title": "Generic methods to plot charts and add navigation regions",
      "topics": [
        "plot,EpivizEnvironment,ANY-method"
      ]
    },
    {
      "page": "rand_id",
      "title": "Random ID generator for epiviz charts",
      "topics": [
        "rand_id"
      ]
    },
    {
      "page": "ScatterPlot-methods",
      "title": "Method to add Scatter Plot",
      "topics": [
        "ScatterPlot",
        "ScatterPlot,EpivizEnvironment-method"
      ]
    },
    {
      "page": "StackedBlocksTrack-methods",
      "title": "Method to add Stacked Blocks Track",
      "topics": [
        "StackedBlocksTrack",
        "StackedBlocksTrack,EpivizEnvironment-method"
      ]
    },
    {
      "page": "StackedLinePlot-methods",
      "title": "Method to add Stacked Line Plot",
      "topics": [
        "StackedLinePlot",
        "StackedLinePlot,EpivizEnvironment-method"
      ]
    },
    {
      "page": "StackedLineTrack-methods",
      "title": "Method to add Stacked Line Track",
      "topics": [
        "StackedLineTrack",
        "StackedLineTrack,EpivizEnvironment-method"
      ]
    },
    {
      "page": "sumexp",
      "title": "Example SummarizedExperiment for epivizr vignette",
      "topics": [
        "sumexp"
      ]
    },
    {
      "page": "tcga_colon_blocks",
      "title": "Example methylation data (blocks) for epivizr vignette.",
      "topics": [
        "tcga_colon_blocks"
      ]
    },
    {
      "page": "tcga_colon_curves",
      "title": "Example methylation data (smoothed methylation levels) for epivizr vignette",
      "topics": [
        "tcga_colon_curves"
      ]
    },
    {
      "page": "tcga_colon_expression",
      "title": "Example exon-level RNAseq data from TCGA project for epivizr vignette.",
      "topics": [
        "tcga_colon_expression"
      ]
    }
  ],
  "_readme": "https://github.com/bioc/epivizrChart/raw/HEAD/README.md",
  "_rundeps": [
    "abind",
    "AnnotationDbi",
    "AnnotationFilter",
    "askpass",
    "base64enc",
    "BH",
    "Biobase",
    "BiocBaseUtils",
    "BiocGenerics",
    "BiocIO",
    "BiocManager",
    "BiocParallel",
    "Biostrings",
    "bit",
    "bit64",
    "bitops",
    "blob",
    "cachem",
    "cigarillo",
    "cli",
    "codetools",
    "cpp11",
    "crayon",
    "curl",
    "DBI",
    "DelayedArray",
    "digest",
    "ensembldb",
    "epivizrData",
    "epivizrServer",
    "fastmap",
    "formatR",
    "futile.logger",
    "futile.options",
    "generics",
    "GenomeInfoDb",
    "GenomicAlignments",
    "GenomicFeatures",
    "GenomicRanges",
    "glue",
    "graph",
    "htmltools",
    "httpuv",
    "httr",
    "IRanges",
    "jsonlite",
    "KEGGREST",
    "lambda.r",
    "later",
    "lattice",
    "lazyeval",
    "lifecycle",
    "magrittr",
    "Matrix",
    "MatrixGenerics",
    "matrixStats",
    "memoise",
    "mime",
    "openssl",
    "OrganismDbi",
    "otel",
    "pkgconfig",
    "png",
    "promises",
    "ProtGenerics",
    "R6",
    "RBGL",
    "Rcpp",
    "RCurl",
    "restfulr",
    "Rhtslib",
    "rjson",
    "rlang",
    "Rsamtools",
    "RSQLite",
    "rtracklayer",
    "S4Arrays",
    "S4Vectors",
    "Seqinfo",
    "snow",
    "SparseArray",
    "SummarizedExperiment",
    "sys",
    "UCSC.utils",
    "vctrs",
    "XML",
    "XVector",
    "yaml"
  ],
  "_vignettes": [
    {
      "source": "IntroToEpivizrChart.Rmd",
      "filename": "IntroToEpivizrChart.html",
      "title": "Visualizing Epiviz Web Components with epivizrChart",
      "author": "Hector Corrada Bravo, Jayaram Kancherla, Brian Gottfried",
      "engine": "knitr::rmarkdown",
      "headings": [
        "What are Epiviz Web Components ?",
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