{
  "_id": "6aca1a7efe5cc25786e84b2a",
  "Package": "TENET.ExperimentHub",
  "Title": "Experiment data for the TENET package",
  "Description": "ExperimentHub package containing datasets for use in the\nTENET package's vignette and function examples. These include a\nvariety of different objects to illustrate different datasets\nused in TENET functions. Where applicable, all datasets are\naligned to the hg38 human genome.",
  "Version": "1.5.0",
  "Authors@R": "c(person(\"Rhie Lab at the University of Southern California\", email = \"rhielab@gmail.com\", role = \"cre\"), person(\"Daniel\", \"Mullen\", role = \"aut\", comment = c(ORCID = \"0000-0002-7639-0549\")), person(\"Zexun\", \"Wu\", role = \"aut\", comment = c(ORCID = \"0000-0003-2566-1326\")), person(\"Ethan\", \"Nelson-Moore\", role = \"aut\", comment = c(ORCID = \"0009-0001-6903-9232\")), person(\"Suhn\", \"Rhie\", role = \"aut\", comment = c(ORCID = \"0000-0002-5522-5296\")))",
  "URL": "https://github.com/rhielab/TENET.ExperimentHub",
  "BugReports": "https://github.com/rhielab/TENET.ExperimentHub/issues",
  "License": "GPL-2",
  "Encoding": "UTF-8",
  "Roxygen": "list(markdown = TRUE)",
  "RoxygenNote": "7.3.3",
  "Config/testthat/edition": "3",
  "BiocType": "ExperimentData",
  "biocViews": "ExperimentHub, ExperimentData, Homo_sapiens_Data,\nCancerData, BreastCancerData, MicroarrayData, ExpressionData,\nRNASeqData, MethylationArrayData, Genome, CellCulture, Tissue",
  "VignetteBuilder": "knitr",
  "Config/pak/sysreqs": "libicu-dev libpng-dev libssl-dev zlib1g-dev",
  "Repository": "https://bioc.r-universe.dev",
  "Date/Publication": "2026-04-28 12:37:51 UTC",
  "RemoteUrl": "https://github.com/bioc/TENET.ExperimentHub",
  "RemoteRef": "HEAD",
  "RemoteSha": "8efd40fe484e39af8132be191b9c187d046449fd",
  "NeedsCompilation": "no",
  "Packaged": {
    "Date": "2026-10-10 10:51:30 UTC",
    "User": "root"
  },
  "Author": "Rhie Lab at the University of Southern California [cre],\nDaniel Mullen [aut] (ORCID: <https://orcid.org/0000-0002-7639-0549>),\nZexun Wu [aut] (ORCID: <https://orcid.org/0000-0003-2566-1326>),\nEthan Nelson-Moore [aut] (ORCID:\n<https://orcid.org/0009-0001-6903-9232>),\nSuhn Rhie [aut] (ORCID: <https://orcid.org/0000-0002-5522-5296>)",
  "Maintainer": "Rhie Lab at the University of Southern California <rhielab@gmail.com>",
  "_user": "bioc",
  "_type": "src",
  "_file": "TENET.ExperimentHub_1.5.0.tar.gz",
  "_fileid": "https://r2.ropensci.org/9d1301e786fabef42a7819d2a132619ec88956fa6b10d975ace02a978411f3ca",
  "_filesize": 140698,
  "_sha256": "9d1301e786fabef42a7819d2a132619ec88956fa6b10d975ace02a978411f3ca",
  "_expires": "2027-01-18T10:59:05.000Z",
  "_created": "2026-10-10T10:51:30.000Z",
  "_published": "2026-10-10T10:59:10.801Z",
  "_buildurl": "https://github.com/r-universe/bioc/actions/runs/38045800385",
  "_status": "success",
  "_host": "GitHub-Actions",
  "_bioccheck": {
    "error": 0,
    "warning": 0,
    "note": 4
  },
  "_upstream": "https://github.com/bioc/TENET.ExperimentHub",
  "_commit": {
    "id": "8efd40fe484e39af8132be191b9c187d046449fd",
    "author": "lshep <lori.shepherd@roswellpark.org>",
    "committer": "lshep <lori.shepherd@roswellpark.org>",
    "message": "bump x.y.z version to odd y following creation of RELEASE_3_23 branch\n",
    "time": 1777379871
  },
  "_maintainer": {
    "name": "Rhie Lab at the University of Southern California",
    "email": "rhielab@gmail.com"
  },
  "_distro": "resolute",
  "_jobs": [
    {
      "job": 114196717084,
      "time": 253,
      "config": "bioc-checks",
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      "check": "NOTE",
      "artifact": "11668370066"
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  "_registered": true,
  "_dependencies": [
    {
      "package": "R",
      "version": ">= 4.5",
      "role": "Depends"
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    {
      "package": "ggplot2",
      "version": ">= 4.0",
      "role": "Depends"
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    {
      "package": "ExperimentHub",
      "role": "Imports"
    },
    {
      "package": "SummarizedExperiment",
      "role": "Imports"
    },
    {
      "package": "MultiAssayExperiment",
      "role": "Imports"
    },
    {
      "package": "GenomicRanges",
      "role": "Imports"
    },
    {
      "package": "methods",
      "role": "Imports"
    },
    {
      "package": "TENET",
      "role": "Suggests"
    },
    {
      "package": "ExperimentHubData",
      "role": "Suggests"
    },
    {
      "package": "testthat",
      "version": ">= 3.0.0",
      "role": "Suggests"
    },
    {
      "package": "BiocManager",
      "role": "Suggests"
    },
    {
      "package": "knitr",
      "role": "Suggests"
    },
    {
      "package": "rmarkdown",
      "role": "Suggests"
    },
    {
      "package": "BiocStyle",
      "role": "Suggests"
    }
  ],
  "_owner": "bioc",
  "_selfowned": true,
  "_usedby": 1,
  "_updates": [
    {
      "week": "2025-41",
      "n": 1
    },
    {
      "week": "2025-42",
      "n": 6
    },
    {
      "week": "2025-43",
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    {
      "week": "2025-44",
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  "_tags": [],
  "_bioc": [
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      "branch": "devel",
      "version": "1.5.0",
      "bioc": "3.24",
      "repository": "data/experiment"
    },
    {
      "branch": "release",
      "version": "1.4.0",
      "bioc": "3.23",
      "repository": "data/experiment"
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  ],
  "_topics": [
    "experimenthub",
    "experimentdata",
    "homo_sapiens_data",
    "cancerdata",
    "breastcancerdata",
    "microarraydata",
    "expressiondata",
    "rnaseqdata",
    "methylationarraydata",
    "genome",
    "cellculture",
    "tissue",
    "datapkg"
  ],
  "_stars": 0,
  "_contributors": [
    {
      "user": "ethannelson-moore",
      "count": 15,
      "uuid": 87036004
    },
    {
      "user": "danieljmullen",
      "count": 6,
      "uuid": 26636973
    },
    {
      "user": "lshep",
      "count": 2,
      "uuid": 18724380
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  ],
  "_userbio": {
    "uuid": 2286807,
    "type": "organization",
    "name": "Bioconductor",
    "followers": 476,
    "description": "Software for the analysis and comprehension of high-throughput genomic data"
  },
  "_devurl": "https://github.com/rhielab/tenet.experimenthub",
  "_searchresults": 4,
  "_datapkg": true,
  "_rbuild": "4.6.1",
  "_assets": [
    "extra/citation.cff",
    "extra/citation.html",
    "extra/citation.json",
    "extra/citation.txt",
    "extra/contents.json",
    "extra/manual.pdf",
    "extra/NEWS.html",
    "extra/NEWS.txt",
    "extra/readme.html",
    "extra/readme.md",
    "extra/TENET.ExperimentHub.html"
  ],
  "_cranurl": false,
  "_exports": [
    "exampleTENETClinicalDataFrame",
    "exampleTENETMultiAssayExperiment",
    "exampleTENETPeakRegions",
    "exampleTENETStep1MakeExternalDatasetsGRanges",
    "exampleTENETStep2GetDifferentiallyMethylatedSitesPuritySummarizedExperiment",
    "exampleTENETTADRegions"
  ],
  "_help": [
    {
      "page": "exampleTENETClinicalDataFrame",
      "title": "Example TENET clinical data frame",
      "topics": [
        "exampleTENETClinicalDataFrame"
      ]
    },
    {
      "page": "exampleTENETMultiAssayExperiment",
      "title": "Example TENET MultiAssayExperiment object",
      "topics": [
        "exampleTENETMultiAssayExperiment"
      ]
    },
    {
      "page": "exampleTENETPeakRegions",
      "title": "Example TENET peak regions",
      "topics": [
        "exampleTENETPeakRegions"
      ]
    },
    {
      "page": "exampleTENETStep1MakeExternalDatasetsGRanges",
      "title": "Example TENET 'step1MakeExternalDatasets' GRanges object",
      "topics": [
        "exampleTENETStep1MakeExternalDatasetsGRanges"
      ]
    },
    {
      "page": "exampleTENETStep2GetDifferentiallyMethylatedSitesPuritySummarizedExperiment",
      "title": "Example TENET 'step2GetDifferentiallyMethylatedSites' purity SummarizedExperiment object",
      "topics": [
        "exampleTENETStep2GetDifferentiallyMethylatedSitesPuritySummarizedExperiment"
      ]
    },
    {
      "page": "exampleTENETTADRegions",
      "title": "Example TENET topologically associating domain (TAD) regions",
      "topics": [
        "exampleTENETTADRegions"
      ]
    }
  ],
  "_readme": "https://github.com/bioc/TENET.ExperimentHub/raw/HEAD/README.md",
  "_rundeps": [
    "abind",
    "AnnotationDbi",
    "AnnotationHub",
    "askpass",
    "Biobase",
    "BiocBaseUtils",
    "BiocFileCache",
    "BiocGenerics",
    "BiocManager",
    "BiocVersion",
    "Biostrings",
    "bit",
    "bit64",
    "blob",
    "cachem",
    "cli",
    "cpp11",
    "crayon",
    "curl",
    "DBI",
    "dbplyr",
    "DelayedArray",
    "dplyr",
    "ExperimentHub",
    "farver",
    "fastmap",
    "filelock",
    "generics",
    "GenomicRanges",
    "ggplot2",
    "glue",
    "gtable",
    "httr",
    "httr2",
    "IRanges",
    "isoband",
    "jsonlite",
    "KEGGREST",
    "labeling",
    "lattice",
    "lifecycle",
    "magrittr",
    "Matrix",
    "MatrixGenerics",
    "matrixStats",
    "memoise",
    "mime",
    "MultiAssayExperiment",
    "openssl",
    "pillar",
    "pkgconfig",
    "png",
    "purrr",
    "R6",
    "rappdirs",
    "RColorBrewer",
    "rlang",
    "RSQLite",
    "S4Arrays",
    "S4Vectors",
    "S7",
    "scales",
    "Seqinfo",
    "SparseArray",
    "stringi",
    "stringr",
    "SummarizedExperiment",
    "sys",
    "tibble",
    "tidyr",
    "tidyselect",
    "utf8",
    "vctrs",
    "viridisLite",
    "withr",
    "XVector",
    "yaml"
  ],
  "_vignettes": [
    {
      "source": "TENET.ExperimentHub_vignette.Rmd",
      "filename": "TENET.ExperimentHub_vignette.html",
      "title": "Using the TENET.ExperimentHub datasets",
      "author": "Rhie Lab at the University of Southern California",
      "engine": "knitr::rmarkdown",
      "headings": [
        "Introduction",
        "Acquiring and installing TENET.ExperimentHub",
        "Loading TENET.ExperimentHub",
        "Using the included datasets",
        "Included datasets",
        "exampleTENETMultiAssayExperiment",
        "exampleTENETClinicalDataFrame",
        "exampleTENETStep1MakeExternalDatasetsGRanges",
        "exampleTENETStep2GetDifferentiallyMethylatedSitesPuritySummarizedExperiment",
        "exampleTENETPeakRegions",
        "exampleTENETTADRegions",
        "Session info"
      ],
      "created": "2024-10-15 22:39:18",
      "modified": "2025-10-26 09:14:55",
      "commits": 5
    }
  ],
  "_score": 5.176091259055681,
  "_indexed": true,
  "_nocasepkg": "tenet.experimenthub",
  "_universes": [
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    "rhielab"
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}