{
  "_id": "6a4f72bc21b18e1548501f25",
  "Package": "GBJ",
  "Type": "Package",
  "Title": "Generalized Berk-Jones Test for Set-Based Inference in Genetic\nAssociation Studies",
  "Version": "0.5.4",
  "Date": "2024-01-28",
  "Authors@R": "person(\"Ryan\", \"Sun\", email = \"ryansun.work@gmail.com\", role = c(\"aut\", \"cre\"))",
  "Description": "Offers the Generalized Berk-Jones (GBJ) test for set-based\ninference in genetic association studies. The GBJ is designed\nas an alternative to tests such as Berk-Jones (BJ), Higher\nCriticism (HC), Generalized Higher Criticism (GHC), Minimum\np-value (minP), and Sequence Kernel Association Test (SKAT).\nAll of these other methods (except for SKAT) are also\nimplemented in this package, and we additionally provide an\nomnibus test (OMNI) which integrates information from each of\nthe tests. The GBJ has been shown to outperform other tests in\ngenetic association studies when signals are correlated and\nmoderately sparse. Please see the vignette for a quickstart\nguide or Sun and Lin (2017) <arXiv:1710.02469> for more\ndetails.",
  "License": "GPL-3",
  "RoxygenNote": "7.3.1",
  "VignetteBuilder": "knitr",
  "NeedsCompilation": "yes",
  "Packaged": {
    "Date": "2026-07-09 09:59:53 UTC",
    "User": "root"
  },
  "Author": "Ryan Sun [aut, cre]",
  "Maintainer": "Ryan Sun <ryansun.work@gmail.com>",
  "Repository": "https://ryansunwork.r-universe.dev",
  "Date/Publication": "2024-02-01 02:34:12 UTC",
  "RemoteUrl": "https://github.com/cran/GBJ",
  "RemoteRef": "HEAD",
  "RemoteSha": "bc40c99b67fd41db41924d911ebf9dbb009b550e",
  "_user": "ryansunwork",
  "_type": "src",
  "_file": "GBJ_0.5.4.tar.gz",
  "_fileid": "https://r2.ropensci.org/1552679a26b37705887d0478dc29e289c0b8c55a3f4e885d2d0d3ad75640f7b7",
  "_filesize": 167811,
  "_sha256": "1552679a26b37705887d0478dc29e289c0b8c55a3f4e885d2d0d3ad75640f7b7",
  "_expires": "2026-10-17T10:06:51.000Z",
  "_created": "2026-07-09T09:59:53.000Z",
  "_published": "2026-07-09T10:06:52.865Z",
  "_jobs": [
    {
      "job": 86091397192,
      "time": 196,
      "config": "linux-devel-arm64",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "8195279714"
    },
    {
      "job": 86091397237,
      "time": 237,
      "config": "linux-devel-x86_64",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "8195297452"
    },
    {
      "job": 86091397405,
      "time": 188,
      "config": "linux-release-arm64",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "8195275450"
    },
    {
      "job": 86091397158,
      "time": 205,
      "config": "linux-release-x86_64",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "8195282697"
    },
    {
      "job": 86091397249,
      "time": 106,
      "config": "macos-oldrel-arm64",
      "r": "4.5.3",
      "check": "OK",
      "artifact": "8195240595"
    },
    {
      "job": 86091397269,
      "time": 285,
      "config": "macos-oldrel-x86_64",
      "r": "4.5.3",
      "check": "OK",
      "artifact": "8195316605"
    },
    {
      "job": 86091397296,
      "time": 124,
      "config": "macos-release-arm64",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "8195248285"
    },
    {
      "job": 86091397355,
      "time": 311,
      "config": "macos-release-x86_64",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "8195328349"
    },
    {
      "job": 86090676870,
      "time": 214,
      "config": "source",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "8195195684"
    },
    {
      "job": 86091397126,
      "time": 120,
      "config": "wasm-release",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "8195246304"
    },
    {
      "job": 86091397172,
      "time": 129,
      "config": "windows-devel",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "8195250493"
    },
    {
      "job": 86091397161,
      "time": 139,
      "config": "windows-oldrel",
      "r": "4.5.3",
      "check": "OK",
      "artifact": "8195253988"
    },
    {
      "job": 86091397290,
      "time": 140,
      "config": "windows-release",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "8195254716"
    }
  ],
  "_host": "GitHub-Actions",
  "_buildurl": "https://github.com/r-universe/ryansunwork/actions/runs/29009891494",
  "_status": "success",
  "_upstream": "https://github.com/cran/GBJ",
  "_commit": {
    "id": "bc40c99b67fd41db41924d911ebf9dbb009b550e",
    "author": "Ryan Sun <ryansun.work@gmail.com>",
    "committer": "cran-robot <csardi.gabor+cran@gmail.com>",
    "message": "version 0.5.4\n",
    "time": 1706754852
  },
  "_maintainer": {
    "name": "Ryan Sun",
    "email": "ryansun.work@gmail.com",
    "login": "ryansunwork",
    "description": "",
    "uuid": 53724996
  },
  "_distro": "resolute",
  "_registered": true,
  "_dependencies": [
    {
      "package": "R",
      "version": ">= 2.10",
      "role": "Depends"
    },
    {
      "package": "Rcpp",
      "role": "LinkingTo"
    },
    {
      "package": "BH",
      "role": "LinkingTo"
    },
    {
      "package": "Rcpp",
      "version": ">= 0.12.7",
      "role": "Imports"
    },
    {
      "package": "mvtnorm",
      "role": "Imports"
    },
    {
      "package": "SKAT",
      "role": "Imports"
    },
    {
      "package": "stats",
      "role": "Imports"
    },
    {
      "package": "BH",
      "role": "Imports"
    },
    {
      "package": "knitr",
      "role": "Suggests"
    },
    {
      "package": "rmarkdown",
      "role": "Suggests"
    },
    {
      "package": "bindata",
      "role": "Suggests"
    },
    {
      "package": "rje",
      "role": "Suggests"
    },
    {
      "package": "testthat",
      "role": "Suggests"
    }
  ],
  "_owner": "cran",
  "_selfowned": true,
  "_usedby": 1,
  "_updates": [],
  "_tags": [],
  "_stars": 2,
  "_contributors": [
    {
      "user": "ryansunwork",
      "count": 5,
      "uuid": 53724996
    }
  ],
  "_userbio": {
    "uuid": 53724996,
    "type": "user",
    "name": "ryansunwork",
    "followers": 0
  },
  "_downloads": {
    "count": 373,
    "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/GBJ"
  },
  "_mentions": 5,
  "_searchresults": 40,
  "_topics": [
    "cpp"
  ],
  "_rbuild": "4.6.1",
  "_assets": [
    "extra/citation.cff",
    "extra/citation.html",
    "extra/citation.json",
    "extra/citation.txt",
    "extra/contents.json",
    "extra/GBJ.html",
    "extra/readme.html",
    "extra/readme.md",
    "manual.pdf"
  ],
  "_realowner": "ryansunwork",
  "_cranurl": false,
  "_releases": [
    {
      "version": "0.4.0",
      "date": "2017-08-30"
    },
    {
      "version": "0.5.0",
      "date": "2017-10-05"
    },
    {
      "version": "0.5.2",
      "date": "2018-06-27"
    },
    {
      "version": "0.5.3",
      "date": "2020-01-13"
    },
    {
      "version": "0.5.4",
      "date": "2024-01-31"
    }
  ],
  "_exports": [
    "BJ",
    "calc_score_stats",
    "calc_var_nonzero_mu",
    "ebb_loglik",
    "estimate_ss_cor",
    "GBJ",
    "GBJ_objective",
    "GBJ_pvalue",
    "GHC",
    "GHC_objective",
    "HC",
    "herm_poly_diff_t",
    "minP",
    "OMNI_individual",
    "OMNI_ss",
    "parse_input",
    "qnorm_mu",
    "score_stats_only",
    "surv"
  ],
  "_datasets": [
    {
      "name": "FGFR2",
      "title": "Genotypes at FGFR2 SNPs for subjects from 'GBR' population in the 1000 Genomes Project.",
      "object": "FGFR2",
      "file": "FGFR2.rda",
      "class": [
        "data.frame"
      ],
      "fields": [
        "V1",
        "V2",
        "V3",
        "V4",
        "V5",
        "V6",
        "V7",
        "V8",
        "V9",
        "V10",
        "V11",
        "V12",
        "V13",
        "V14",
        "V15",
        "V16",
        "V17",
        "V18",
        "V19",
        "V20",
        "V21",
        "V22",
        "V23",
        "V24",
        "V25",
        "V26",
        "V27",
        "V28",
        "V29",
        "V30",
        "V31",
        "V32",
        "V33",
        "V34",
        "V35",
        "V36",
        "V37",
        "V38",
        "V39",
        "V40",
        "V41",
        "V42",
        "V43",
        "V44",
        "V45",
        "V46",
        "V47",
        "V48",
        "V49",
        "V50",
        "V51",
        "V52",
        "V53",
        "V54",
        "V55",
        "V56",
        "V57",
        "V58",
        "V59",
        "V60",
        "V61",
        "V62",
        "V63",
        "V64"
      ],
      "rows": 91,
      "table": true,
      "tojson": true
    },
    {
      "name": "gbr_pcs",
      "title": "Simulated Principal Components for 'GBR' population in the 1000 Genomes Project.",
      "object": "gbr_pcs",
      "file": "gbr_pcs.rda",
      "class": [
        "matrix",
        "array"
      ],
      "fields": [
        "PC1",
        "PC2",
        "PC3",
        "PC4",
        "PC5"
      ],
      "rows": 91,
      "table": true,
      "tojson": true
    }
  ],
  "_help": [
    {
      "page": "BJ",
      "title": "BJ.R",
      "topics": [
        "BJ"
      ]
    },
    {
      "page": "calc_score_stats",
      "title": "calc_score_stats.R",
      "topics": [
        "calc_score_stats"
      ]
    },
    {
      "page": "estimate_ss_cor",
      "title": "estimate_ss_cor.R",
      "topics": [
        "estimate_ss_cor"
      ]
    },
    {
      "page": "FGFR2",
      "title": "Genotypes at FGFR2 SNPs for subjects from 'GBR' population in the 1000 Genomes Project.",
      "topics": [
        "FGFR2"
      ]
    },
    {
      "page": "GBJ",
      "title": "GBJ.R",
      "topics": [
        "GBJ"
      ]
    },
    {
      "page": "GBJ_pvalue",
      "title": "GBJ_pvalue.R",
      "topics": [
        "GBJ_pvalue"
      ]
    },
    {
      "page": "gbr_pcs",
      "title": "Simulated Principal Components for 'GBR' population in the 1000 Genomes Project.",
      "topics": [
        "gbr_pcs"
      ]
    },
    {
      "page": "GHC",
      "title": "GHC.R",
      "topics": [
        "GHC"
      ]
    },
    {
      "page": "HC",
      "title": "HC.R",
      "topics": [
        "HC"
      ]
    },
    {
      "page": "minP",
      "title": "minP.R",
      "topics": [
        "minP"
      ]
    },
    {
      "page": "OMNI_individual",
      "title": "omni_individual.R",
      "topics": [
        "OMNI_individual"
      ]
    },
    {
      "page": "OMNI_ss",
      "title": "omni_ss.R",
      "topics": [
        "OMNI_ss"
      ]
    },
    {
      "page": "score_stats_only",
      "title": "score_stats_only.R",
      "topics": [
        "score_stats_only"
      ]
    },
    {
      "page": "surv",
      "title": "surv.R",
      "topics": [
        "surv"
      ]
    }
  ],
  "_readme": "https://github.com/cran/GBJ/raw/HEAD/README.md",
  "_rundeps": [
    "BH",
    "lattice",
    "Matrix",
    "mvtnorm",
    "Rcpp",
    "RcppEigen",
    "RSpectra",
    "SKAT",
    "SPAtest"
  ],
  "_sysdeps": [
    {
      "shlib": "libstdc++",
      "package": "libstdc++6",
      "source": "gcc",
      "version": "16-20260322-1ubuntu1",
      "name": "c++",
      "homepage": "http://gcc.gnu.org/",
      "description": "GNU Standard C++ Library v3"
    }
  ],
  "_vignettes": [
    {
      "source": "GBJ_tutorial.Rmd",
      "filename": "GBJ_tutorial.html",
      "title": "Generalized Berk-Jones (GBJ) Tutorial",
      "author": "Ryan Sun",
      "engine": "knitr::rmarkdown",
      "headings": [
        "Uses for GBJ",
        "Worked Example - Individual Level Genotype Data",
        "Worked Example - Summary Statistics",
        "Some advice for special cases"
      ],
      "created": "2017-08-30 17:37:48",
      "modified": "2024-02-01 02:34:12",
      "commits": 4
    }
  ],
  "_score": 4.778151250383644,
  "_indexed": true,
  "_nocasepkg": "gbj",
  "_universes": [
    "ryansunwork"
  ],
  "_binaries": [
    {
      "r": "4.7.0",
      "os": "linux",
      "version": "0.5.4",
      "date": "2026-07-09T10:03:05.000Z",
      "distro": "resolute",
      "arch": "aarch64",
      "commit": "bc40c99b67fd41db41924d911ebf9dbb009b550e",
      "fileid": "https://r2.ropensci.org/b8859af42e9c9bb7087db9ec6911171405a42a903258980fc12dc17c4b10388d",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/ryansunwork/actions/runs/29009891494"
    },
    {
      "r": "4.7.0",
      "os": "linux",
      "version": "0.5.4",
      "date": "2026-07-09T10:03:35.000Z",
      "distro": "resolute",
      "arch": "x86_64",
      "commit": "bc40c99b67fd41db41924d911ebf9dbb009b550e",
      "fileid": "https://r2.ropensci.org/5b7316fa24ef4115f3ae24e1a840a5c991cd5a68126685f27f441ba8498ca360",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/ryansunwork/actions/runs/29009891494"
    },
    {
      "r": "4.6.1",
      "os": "linux",
      "version": "0.5.4",
      "date": "2026-07-09T10:02:55.000Z",
      "distro": "resolute",
      "arch": "aarch64",
      "commit": "bc40c99b67fd41db41924d911ebf9dbb009b550e",
      "fileid": "https://r2.ropensci.org/8ae3b195cb81f228a0c5e408ca2b6ee9b76408911b4c1c9163f338ad346382fc",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/ryansunwork/actions/runs/29009891494"
    },
    {
      "r": "4.6.1",
      "os": "linux",
      "version": "0.5.4",
      "date": "2026-07-09T10:03:02.000Z",
      "distro": "resolute",
      "arch": "x86_64",
      "commit": "bc40c99b67fd41db41924d911ebf9dbb009b550e",
      "fileid": "https://r2.ropensci.org/a98607f525158c13ee2bd085a7a6d3b65bf0a6a1152fff7710fdabe549deff12",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/ryansunwork/actions/runs/29009891494"
    },
    {
      "r": "4.5.3",
      "os": "mac",
      "version": "0.5.4",
      "date": "2026-07-09T10:01:34.000Z",
      "arch": "aarch64",
      "commit": "bc40c99b67fd41db41924d911ebf9dbb009b550e",
      "fileid": "https://r2.ropensci.org/38e8dd3862f4404467dfe4d7ac34b59f5b0d52e1a60cf71ef768efd039e7f25d",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/ryansunwork/actions/runs/29009891494"
    },
    {
      "r": "4.5.3",
      "os": "mac",
      "version": "0.5.4",
      "date": "2026-07-09T10:03:40.000Z",
      "arch": "x86_64",
      "commit": "bc40c99b67fd41db41924d911ebf9dbb009b550e",
      "fileid": "https://r2.ropensci.org/fd2ddd338f9b4c1ec191307998d26c85bb857a850412fa8334033b38f2e178aa",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/ryansunwork/actions/runs/29009891494"
    },
    {
      "r": "4.6.1",
      "os": "mac",
      "version": "0.5.4",
      "date": "2026-07-09T10:01:48.000Z",
      "arch": "aarch64",
      "commit": "bc40c99b67fd41db41924d911ebf9dbb009b550e",
      "fileid": "https://r2.ropensci.org/1987d51371a945a94b55cea79f8b45233203f43a58b995b1405216ca89406e0d",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/ryansunwork/actions/runs/29009891494"
    },
    {
      "r": "4.6.1",
      "os": "mac",
      "version": "0.5.4",
      "date": "2026-07-09T10:03:54.000Z",
      "arch": "x86_64",
      "commit": "bc40c99b67fd41db41924d911ebf9dbb009b550e",
      "fileid": "https://r2.ropensci.org/692e97f5e695966383dd0af5cf546b3804ff0fdb389cd0705927e2c1e67ae222",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/ryansunwork/actions/runs/29009891494"
    },
    {
      "r": "4.6.0",
      "os": "wasm",
      "version": "0.5.4",
      "date": "2026-07-09T10:02:14.000Z",
      "arch": "emscripten",
      "commit": "bc40c99b67fd41db41924d911ebf9dbb009b550e",
      "fileid": "https://r2.ropensci.org/593be39fabf7d659385016cfc43ffdcdb6554ea6c6b81123edc95203ddaa2276",
      "status": "success",
      "buildurl": "https://github.com/r-universe/ryansunwork/actions/runs/29009891494"
    },
    {
      "r": "4.7.0",
      "os": "win",
      "version": "0.5.4",
      "date": "2026-07-09T10:01:27.000Z",
      "arch": "x86_64",
      "commit": "bc40c99b67fd41db41924d911ebf9dbb009b550e",
      "fileid": "https://r2.ropensci.org/252683a31f676d5a9077a88a4ffb19e811aa4cd01777ac8f6bbd77b3fe51898c",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/ryansunwork/actions/runs/29009891494"
    },
    {
      "r": "4.5.3",
      "os": "win",
      "version": "0.5.4",
      "date": "2026-07-09T10:01:31.000Z",
      "arch": "x86_64",
      "commit": "bc40c99b67fd41db41924d911ebf9dbb009b550e",
      "fileid": "https://r2.ropensci.org/c5f50ba5dabca00a1d3752d026ccc3133ea11feafaec52f1b72823091dd3f299",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/ryansunwork/actions/runs/29009891494"
    },
    {
      "r": "4.6.1",
      "os": "win",
      "version": "0.5.4",
      "date": "2026-07-09T10:01:31.000Z",
      "arch": "x86_64",
      "commit": "bc40c99b67fd41db41924d911ebf9dbb009b550e",
      "fileid": "https://r2.ropensci.org/8baad2b72e8edf8b36aa82aa5b44467c82ee121d059666dce19ed0841ff8eeb9",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/ryansunwork/actions/runs/29009891494"
    }
  ]
}