{
  "_id": "6a1acaf81d7bb097a09ddad5",
  "Package": "HIREewas",
  "Type": "Package",
  "Title": "Detection of cell-type-specific risk-CpG sites in epigenome-wide\nassociation studies",
  "Version": "1.31.0",
  "Date": "2018-06-11",
  "Author": "Xiangyu Luo <xyluo1991@gmail.com>, Can Yang <macyang@ust.hk>,\nYingying Wei <yweicuhk@gmail.com>",
  "Maintainer": "Xiangyu Luo <xyluo1991@gmail.com>",
  "Description": "In epigenome-wide association studies, the measured\nsignals for each sample are a mixture of methylation profiles\nfrom different cell types. The current approaches to the\nassociation detection only claim whether a\ncytosine-phosphate-guanine (CpG) site is associated with the\nphenotype or not, but they cannot determine the cell type in\nwhich the risk-CpG site is affected by the phenotype. We\npropose a solid statistical method, HIgh REsolution (HIRE),\nwhich not only substantially improves the power of association\ndetection at the aggregated level as compared to the existing\nmethods but also enables the detection of risk-CpG sites for\nindividual cell types. The \"HIREewas\" R package is to implement\nHIRE model in R.",
  "VignetteBuilder": "knitr",
  "biocViews": "DNAMethylation, DifferentialMethylation, FeatureExtraction",
  "LazyLoad": "yes",
  "License": "GPL (>= 2)",
  "Repository": "https://bioc.r-universe.dev",
  "Date/Publication": "2026-04-28 12:48:54 UTC",
  "RemoteUrl": "https://github.com/bioc/HIREewas",
  "RemoteRef": "HEAD",
  "RemoteSha": "7edc56bd5c44cfd118989ad46daf8fe993f4aae8",
  "NeedsCompilation": "yes",
  "Packaged": {
    "Date": "2026-05-30 07:59:36 UTC",
    "User": "root"
  },
  "MD5sum": "7226b9e8b5004e8d42f766490b2074fb",
  "_user": "bioc",
  "_type": "src",
  "_file": "HIREewas_1.31.0.tar.gz",
  "_fileid": "99803007ac88bc4e9be99b3893667c6738a290d77054fbe9f9874c4df544e99a",
  "_filesize": 377238,
  "_sha256": "99803007ac88bc4e9be99b3893667c6738a290d77054fbe9f9874c4df544e99a",
  "_created": "2026-05-30T07:59:36.000Z",
  "_published": "2026-05-30T11:33:12.243Z",
  "_jobs": [
    {
      "job": 78635111918,
      "time": 146,
      "config": "bioc-checks",
      "r": "4.6.0",
      "check": "ERROR",
      "artifact": "7306675890"
    },
    {
      "job": 78635111929,
      "time": 191,
      "config": "linux-devel-arm64",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "7306680121"
    },
    {
      "job": 78635111941,
      "time": 210,
      "config": "linux-devel-x86_64",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "7306682048"
    },
    {
      "job": 78635111945,
      "time": 179,
      "config": "linux-release-arm64",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7306678957"
    },
    {
      "job": 78635111935,
      "time": 185,
      "config": "linux-release-x86_64",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7306679643"
    },
    {
      "job": 78635111943,
      "time": 127,
      "config": "macos-oldrel-arm64",
      "r": "4.5.3",
      "check": "NOTE",
      "artifact": "7307870532"
    },
    {
      "job": 78635111944,
      "time": 365,
      "config": "macos-oldrel-x86_64",
      "r": "4.5.3",
      "check": "NOTE",
      "artifact": "7306696898"
    },
    {
      "job": 78635111942,
      "time": 96,
      "config": "macos-release-arm64",
      "r": "4.6.0",
      "check": "NOTE",
      "artifact": "7307866978"
    },
    {
      "job": 78635111947,
      "time": 272,
      "config": "macos-release-x86_64",
      "r": "4.6.0",
      "check": "NOTE",
      "artifact": "7306689432"
    },
    {
      "job": 78634928486,
      "time": 220,
      "config": "source",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7306660681"
    },
    {
      "job": 78635111911,
      "time": 127,
      "config": "wasm-release",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7306673935"
    },
    {
      "job": 78635111925,
      "time": 151,
      "config": "windows-devel",
      "r": "4.7.0",
      "check": "NOTE",
      "artifact": "7306676268"
    },
    {
      "job": 78635111939,
      "time": 120,
      "config": "windows-oldrel",
      "r": "4.5.3",
      "check": "NOTE",
      "artifact": "7306673226"
    },
    {
      "job": 78635111917,
      "time": 104,
      "config": "windows-release",
      "r": "4.6.0",
      "check": "NOTE",
      "artifact": "7306671684"
    }
  ],
  "_bioccheck": {
    "error": 1,
    "warning": 2,
    "note": 9
  },
  "_buildurl": "https://github.com/r-universe/bioc/actions/runs/26678608633",
  "_status": "success",
  "_host": "GitHub-Actions",
  "_upstream": "https://github.com/bioc/HIREewas",
  "_commit": {
    "id": "7edc56bd5c44cfd118989ad46daf8fe993f4aae8",
    "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": 1777380534
  },
  "_maintainer": {
    "name": "Xiangyu Luo",
    "email": "xyluo1991@gmail.com",
    "login": "xiangyuluo",
    "description": "\n    Associate Professor (with tenure), Institute of Statistics and Big Data,  Renmin University of China\n",
    "uuid": 25922838
  },
  "_distro": "noble",
  "_registered": true,
  "_dependencies": [
    {
      "package": "R",
      "version": ">= 3.5.0",
      "role": "Depends"
    },
    {
      "package": "quadprog",
      "role": "Imports"
    },
    {
      "package": "gplots",
      "role": "Imports"
    },
    {
      "package": "grDevices",
      "role": "Imports"
    },
    {
      "package": "stats",
      "role": "Imports"
    },
    {
      "package": "BiocStyle",
      "role": "Suggests"
    },
    {
      "package": "knitr",
      "role": "Suggests"
    },
    {
      "package": "BiocGenerics",
      "role": "Suggests"
    }
  ],
  "_owner": "bioc",
  "_selfowned": true,
  "_usedby": 0,
  "_updates": [
    {
      "week": "2025-44",
      "n": 2
    },
    {
      "week": "2026-18",
      "n": 2
    }
  ],
  "_tags": [],
  "_bioc": [
    {
      "branch": "devel",
      "version": "1.31.0",
      "bioc": "3.24"
    },
    {
      "branch": "release",
      "version": "1.30.0",
      "bioc": "3.23"
    }
  ],
  "_topics": [
    "dnamethylation",
    "differentialmethylation",
    "featureextraction"
  ],
  "_userbio": {
    "uuid": 2286807,
    "type": "organization",
    "name": "Bioconductor",
    "description": "Software for the analysis and comprehension of high-throughput genomic data"
  },
  "_downloads": {
    "count": 338,
    "source": "https://www.bioconductor.org/packages/stats/bioc/HIREewas"
  },
  "_searchresults": 1,
  "_rbuild": "4.6.0",
  "_assets": [
    "extra/citation.cff",
    "extra/citation.html",
    "extra/citation.json",
    "extra/citation.txt",
    "extra/contents.json",
    "extra/HIREewas.html",
    "extra/NEWS.html",
    "extra/NEWS.txt",
    "extra/readme.html",
    "extra/readme.md",
    "manual.pdf"
  ],
  "_realowner": "bioc",
  "_cranurl": false,
  "_exports": [
    "HIRE",
    "riskCpGpattern"
  ],
  "_help": [
    {
      "page": "HIREewas-package",
      "title": "Detection of cell-type-specific risk-CpG sites in epigenome-wide association studies",
      "topics": [
        "HIREewas-package",
        "HIREewas"
      ]
    },
    {
      "page": "HIRE",
      "title": "Detection of cell-type-specific risk-CpG sites in epigenome-wide association studies",
      "topics": [
        "HIRE"
      ]
    },
    {
      "page": "riskCpGpattern",
      "title": "Plot the detected association pattern with one phenotype using heatmap",
      "topics": [
        "riskCpGpattern"
      ]
    }
  ],
  "_readme": "https://github.com/bioc/HIREewas/raw/HEAD/README.md",
  "_rundeps": [
    "bitops",
    "caTools",
    "gplots",
    "gtools",
    "KernSmooth",
    "quadprog"
  ],
  "_vignettes": [
    {
      "source": "HIREewas.Rnw",
      "filename": "HIREewas.pdf",
      "title": "HIREewas",
      "engine": "knitr::knitr",
      "headings": [],
      "created": "2018-09-12 07:44:38",
      "modified": "2018-12-01 04:51:38",
      "commits": 6
    }
  ],
  "_score": 4,
  "_indexed": true,
  "_nocasepkg": "hireewas",
  "_universes": [
    "bioc",
    "xiangyuluo"
  ],
  "_binaries": [
    {
      "r": "4.7.0",
      "os": "linux",
      "version": "1.31.0",
      "date": "2026-05-30T08:02:25.000Z",
      "distro": "noble",
      "arch": "aarch64",
      "commit": "7edc56bd5c44cfd118989ad46daf8fe993f4aae8",
      "fileid": "872feec00822f9449b23d372c8a14e2e648fffcf1d2943afa32aaadcf771d8e8",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26678608633"
    },
    {
      "r": "4.7.0",
      "os": "linux",
      "version": "1.31.0",
      "date": "2026-05-30T08:02:42.000Z",
      "distro": "noble",
      "arch": "x86_64",
      "commit": "7edc56bd5c44cfd118989ad46daf8fe993f4aae8",
      "fileid": "b5d817d6062096829a273bc700bbe1ae8a213bf1769b806d79959d65623c0469",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26678608633"
    },
    {
      "r": "4.6.0",
      "os": "linux",
      "version": "1.31.0",
      "date": "2026-05-30T08:02:12.000Z",
      "distro": "noble",
      "arch": "aarch64",
      "commit": "7edc56bd5c44cfd118989ad46daf8fe993f4aae8",
      "fileid": "1a52806332231584b45aef5daf32c63b23a8e91926b93bac243cad57c83ca0bf",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26678608633"
    },
    {
      "r": "4.6.0",
      "os": "linux",
      "version": "1.31.0",
      "date": "2026-05-30T08:02:15.000Z",
      "distro": "noble",
      "arch": "x86_64",
      "commit": "7edc56bd5c44cfd118989ad46daf8fe993f4aae8",
      "fileid": "7b14291f373c56be3ab79b53a3a50adf3422b65c861178f242a2cd69cb359bca",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26678608633"
    },
    {
      "r": "4.5.3",
      "os": "mac",
      "version": "1.31.0",
      "date": "2026-05-30T11:32:15.000Z",
      "arch": "aarch64",
      "commit": "7edc56bd5c44cfd118989ad46daf8fe993f4aae8",
      "fileid": "7e1b03296e90450e538027e933acfad3c4a33c039da81f59a827a912056a4ded",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26678608633"
    },
    {
      "r": "4.5.3",
      "os": "mac",
      "version": "1.31.0",
      "date": "2026-05-30T08:04:35.000Z",
      "arch": "x86_64",
      "commit": "7edc56bd5c44cfd118989ad46daf8fe993f4aae8",
      "fileid": "d39124617b130c0cc0be910b2c0b0fe10c46ba842cb3239c82cb00724e7f0455",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26678608633"
    },
    {
      "r": "4.6.0",
      "os": "mac",
      "version": "1.31.0",
      "date": "2026-05-30T11:31:50.000Z",
      "arch": "aarch64",
      "commit": "7edc56bd5c44cfd118989ad46daf8fe993f4aae8",
      "fileid": "c8742d12df3e2021382ae8f67d626639c2de982958be73a45022e333e114a88b",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26678608633"
    },
    {
      "r": "4.6.0",
      "os": "mac",
      "version": "1.31.0",
      "date": "2026-05-30T08:03:20.000Z",
      "arch": "x86_64",
      "commit": "7edc56bd5c44cfd118989ad46daf8fe993f4aae8",
      "fileid": "a29e13ea458d930e49937b544de7e65c10a6ddfac646cdafff4595554e07f280",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26678608633"
    },
    {
      "r": "4.6.0",
      "os": "wasm",
      "version": "1.31.0",
      "date": "2026-05-30T08:02:00.000Z",
      "arch": "emscripten",
      "commit": "7edc56bd5c44cfd118989ad46daf8fe993f4aae8",
      "fileid": "5c2e7641d72cec1cd94343291eee90dc2ddfe9c2b4f7017c26e93f59961ef8f8",
      "status": "success",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26678608633"
    },
    {
      "r": "4.7.0",
      "os": "win",
      "version": "1.31.0",
      "date": "2026-05-30T08:01:08.000Z",
      "arch": "x86_64",
      "commit": "7edc56bd5c44cfd118989ad46daf8fe993f4aae8",
      "fileid": "93bc6c803afeca96690f6226e6c8e76081ff3e112fd261b0cb3b80e9097a92d5",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26678608633"
    },
    {
      "r": "4.5.3",
      "os": "win",
      "version": "1.31.0",
      "date": "2026-05-30T08:00:47.000Z",
      "arch": "x86_64",
      "commit": "7edc56bd5c44cfd118989ad46daf8fe993f4aae8",
      "fileid": "8af1274874f35300d4f076bdfbb2508054c86777661a6dc5940883895fe66148",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26678608633"
    },
    {
      "r": "4.6.0",
      "os": "win",
      "version": "1.31.0",
      "date": "2026-05-30T08:00:46.000Z",
      "arch": "x86_64",
      "commit": "7edc56bd5c44cfd118989ad46daf8fe993f4aae8",
      "fileid": "c76601544a0ea77aaa0c5b9fadb94eaceebb5eec91fcc604792b78bffde528fb",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26678608633"
    }
  ]
}