{
  "_id": "6a12a9c9acfb0bcc41d15ffa",
  "Package": "fdrci",
  "Type": "Package",
  "Title": "Permutation-Based FDR Point and Confidence Interval Estimation",
  "Version": "2.4",
  "Date": "2022-10-17",
  "Authors@R": "person(\n\"Joshua\", \"Millstein\", email = \"joshua.millstein@usc.edu\",\nrole = c(\"aut\", \"cre\"))",
  "Encoding": "UTF-8",
  "Description": "FDR functions for permutation-based estimators, including\npi0 as well as FDR confidence intervals. The confidence\nintervals account for dependencies between tests by the\nincorporation of an overdispersion parameter, which is\nestimated from the permuted data. Also included are options for\nan analog parametric approach.",
  "License": "Artistic-2.0",
  "LazyLoad": "yes",
  "RoxygenNote": "7.1.2",
  "VignetteBuilder": "knitr",
  "NeedsCompilation": "no",
  "Packaged": {
    "Date": "2026-05-24 07:29:48 UTC",
    "User": "root"
  },
  "Author": "Joshua Millstein [aut, cre]",
  "Maintainer": "Joshua Millstein <joshua.millstein@usc.edu>",
  "Repository": "https://millstei.r-universe.dev",
  "Date/Publication": "2022-10-18 01:12:32 UTC",
  "RemoteUrl": "https://github.com/cran/fdrci",
  "RemoteRef": "HEAD",
  "RemoteSha": "71f31bd0f7086e3fcf778dd3f72bba6b53ebd32c",
  "MD5sum": "33882e20f65813c7b80cf7edac82d07a",
  "_user": "millstei",
  "_type": "src",
  "_file": "fdrci_2.4.tar.gz",
  "_fileid": "5076716ccdb38dcf3bfc422952d60fd9d15d209678c00451cd25c48fe94676ab",
  "_filesize": 495650,
  "_sha256": "5076716ccdb38dcf3bfc422952d60fd9d15d209678c00451cd25c48fe94676ab",
  "_created": "2026-05-24T07:29:48.000Z",
  "_published": "2026-05-24T07:33:29.280Z",
  "_distro": "noble",
  "_jobs": [
    {
      "job": 77580539523,
      "time": 147,
      "config": "linux-devel-x86_64",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "7183287849"
    },
    {
      "job": 77580539513,
      "time": 141,
      "config": "linux-release-x86_64",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7183287115"
    },
    {
      "job": 77580539506,
      "time": 128,
      "config": "macos-oldrel-arm64",
      "r": "4.5.3",
      "check": "OK",
      "artifact": "7183284144"
    },
    {
      "job": 77580539517,
      "time": 126,
      "config": "macos-release-arm64",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7183290005"
    },
    {
      "job": 77580338964,
      "time": 234,
      "config": "source",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7183271728"
    },
    {
      "job": 77580539515,
      "time": 112,
      "config": "wasm-release",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7183284154"
    },
    {
      "job": 77580539524,
      "time": 85,
      "config": "windows-devel",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "7183281299"
    },
    {
      "job": 77580539522,
      "time": 97,
      "config": "windows-oldrel",
      "r": "4.5.3",
      "check": "OK",
      "artifact": "7183282530"
    },
    {
      "job": 77580539516,
      "time": 90,
      "config": "windows-release",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7183281799"
    }
  ],
  "_buildurl": "https://github.com/r-universe/millstei/actions/runs/26355111891",
  "_status": "success",
  "_host": "GitHub-Actions",
  "_upstream": "https://github.com/cran/fdrci",
  "_commit": {
    "id": "71f31bd0f7086e3fcf778dd3f72bba6b53ebd32c",
    "author": "Joshua Millstein <joshua.millstein@usc.edu>",
    "committer": "cran-robot <csardi.gabor+cran@gmail.com>",
    "message": "version 2.4\n",
    "time": 1666055552
  },
  "_maintainer": {
    "name": "Joshua Millstein",
    "email": "joshua.millstein@usc.edu",
    "login": "millstei",
    "description": "",
    "uuid": 23107824
  },
  "_registered": true,
  "_dependencies": [
    {
      "package": "ggplot2",
      "role": "Imports"
    },
    {
      "package": "stats",
      "role": "Imports"
    },
    {
      "package": "rmarkdown",
      "role": "Suggests"
    },
    {
      "package": "knitr",
      "role": "Suggests"
    },
    {
      "package": "GEOquery",
      "role": "Suggests"
    },
    {
      "package": "dplyr",
      "role": "Suggests"
    },
    {
      "package": "foreach",
      "role": "Suggests"
    }
  ],
  "_owner": "cran",
  "_selfowned": true,
  "_usedby": 0,
  "_updates": [],
  "_tags": [],
  "_stars": 0,
  "_contributors": [
    {
      "user": "millstei",
      "count": 5,
      "uuid": 23107824
    }
  ],
  "_userbio": {
    "uuid": 23107824,
    "type": "user",
    "name": "millstei"
  },
  "_downloads": {
    "count": 278,
    "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/fdrci"
  },
  "_mentions": 1,
  "_searchresults": 16,
  "_rbuild": "4.6.0",
  "_assets": [
    "extra/citation.cff",
    "extra/citation.html",
    "extra/citation.json",
    "extra/citation.txt",
    "extra/contents.json",
    "extra/fdrci.html",
    "extra/readme.html",
    "extra/readme.md",
    "manual.pdf"
  ],
  "_realowner": "millstei",
  "_cranurl": false,
  "_releases": [
    {
      "version": "1.0",
      "date": "2012-10-29"
    },
    {
      "version": "2.0",
      "date": "2013-10-05"
    },
    {
      "version": "2.1",
      "date": "2016-11-15"
    },
    {
      "version": "2.2",
      "date": "2021-06-11"
    },
    {
      "version": "2.3",
      "date": "2022-06-07"
    },
    {
      "version": "2.4",
      "date": "2022-10-18"
    }
  ],
  "_exports": [
    "fdr_od",
    "FDRplot",
    "fdrTbl",
    "meff.jm",
    "MV_q"
  ],
  "_help": [
    {
      "page": "fdrci-package",
      "title": "Permutation-Based FDR Point and Confidence Interval Estimation",
      "topics": [
        "fdrci-package",
        "fdrci"
      ]
    },
    {
      "page": "fdr_od",
      "title": "Tail-area FDR and Confidence Interval",
      "topics": [
        "fdr_od"
      ]
    },
    {
      "page": "FDRplot",
      "title": "Plot results of FDR table generated by fdrTbl()",
      "topics": [
        "FDRplot"
      ]
    },
    {
      "page": "fdrTbl",
      "title": "FDR Estimate and Confidence Interval Sequence Table",
      "topics": [
        "fdrTbl"
      ]
    },
    {
      "page": "meff.jm",
      "title": "Estimate the Effective Number of Tests",
      "topics": [
        "meff.jm"
      ]
    },
    {
      "page": "MV_q",
      "title": "MV q-values and confidence intervals",
      "topics": [
        "MV_q"
      ]
    }
  ],
  "_readme": "https://github.com/cran/fdrci/raw/HEAD/README.md",
  "_rundeps": [
    "cli",
    "cpp11",
    "farver",
    "ggplot2",
    "glue",
    "gtable",
    "isoband",
    "labeling",
    "lifecycle",
    "R6",
    "RColorBrewer",
    "rlang",
    "S7",
    "scales",
    "vctrs",
    "viridisLite",
    "withr"
  ],
  "_vignettes": [
    {
      "source": "BY_vignette.Rmd",
      "filename": "BY_vignette.html",
      "title": "fdrci: FDR selection and adjustment - HGSOC",
      "author": "Joshua Millstein",
      "engine": "knitr::rmarkdown",
      "headings": [
        "Introduction",
        "First we load the libraries",
        "Download data from GEO",
        "Age*stage effect modification analysis",
        "Compute BH FDR",
        "Repeatly conduct analysis following permutation",
        "Compute FDR using the fdrci package",
        "First we will estimate FDR and 95% CIs without accounting for multiplicity",
        "Next we use the BH option for the FDR selection and adjustment approach described in our paper [@JM-BY-FDR].",
        "Why is there no difference between the adjusted and unadjusted results?",
        "Final thoughts"
      ],
      "created": "2022-06-07 21:40:02",
      "modified": "2022-10-18 01:12:32",
      "commits": 2
    }
  ],
  "_score": 2.9030899869919438,
  "_indexed": true,
  "_nocasepkg": "fdrci",
  "_universes": [
    "millstei"
  ],
  "_binaries": [
    {
      "r": "4.7.0",
      "os": "linux",
      "version": "2.4",
      "date": "2026-05-24T07:32:07.000Z",
      "distro": "noble",
      "commit": "71f31bd0f7086e3fcf778dd3f72bba6b53ebd32c",
      "fileid": "74411a2e3222a268f99dacdb28e358d238e76f36532569a0a9d64bb87b7bbfa1",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/millstei/actions/runs/26355111891"
    },
    {
      "r": "4.6.0",
      "os": "linux",
      "version": "2.4",
      "date": "2026-05-24T07:32:06.000Z",
      "distro": "noble",
      "commit": "71f31bd0f7086e3fcf778dd3f72bba6b53ebd32c",
      "fileid": "3b1b85fa9d0e62c94ab7702ee4200083f5272b47b6d581abcc67a316734bb0c9",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/millstei/actions/runs/26355111891"
    },
    {
      "r": "4.5.3",
      "os": "mac",
      "version": "2.4",
      "date": "2026-05-24T07:31:42.000Z",
      "commit": "71f31bd0f7086e3fcf778dd3f72bba6b53ebd32c",
      "fileid": "02b4da711181d7a09b3fbad30b33ec867119cfabc64733621b98bccea5c061ff",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/millstei/actions/runs/26355111891"
    },
    {
      "r": "4.6.0",
      "os": "mac",
      "version": "2.4",
      "date": "2026-05-24T07:32:39.000Z",
      "commit": "71f31bd0f7086e3fcf778dd3f72bba6b53ebd32c",
      "fileid": "694f4cfb7924d0a6cbb75bb54db416b134120a822861632a6df0bbae984b4265",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/millstei/actions/runs/26355111891"
    },
    {
      "r": "4.6.0",
      "os": "wasm",
      "version": "2.4",
      "date": "2026-05-24T07:31:58.000Z",
      "commit": "71f31bd0f7086e3fcf778dd3f72bba6b53ebd32c",
      "fileid": "22477b6b12b7b795f8ef9f342f6da20e270b4e356d24ce0fc5e7c0812281c765",
      "status": "success",
      "buildurl": "https://github.com/r-universe/millstei/actions/runs/26355111891"
    },
    {
      "r": "4.7.0",
      "os": "win",
      "version": "2.4",
      "date": "2026-05-24T07:31:03.000Z",
      "commit": "71f31bd0f7086e3fcf778dd3f72bba6b53ebd32c",
      "fileid": "1b24b39f98469a305229d1ffc819d9ab98e27a209103aa5524bdce80ffa22bc3",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/millstei/actions/runs/26355111891"
    },
    {
      "r": "4.5.3",
      "os": "win",
      "version": "2.4",
      "date": "2026-05-24T07:31:11.000Z",
      "commit": "71f31bd0f7086e3fcf778dd3f72bba6b53ebd32c",
      "fileid": "903c7d93029553dfe0600397ad0a4037dbb65acf0fb490693a97c7f439c3f841",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/millstei/actions/runs/26355111891"
    },
    {
      "r": "4.6.0",
      "os": "win",
      "version": "2.4",
      "date": "2026-05-24T07:31:03.000Z",
      "commit": "71f31bd0f7086e3fcf778dd3f72bba6b53ebd32c",
      "fileid": "0b79bf97ec162becc99559e7a9f1fb49ed604df324fea8408535f52afc54e273",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/millstei/actions/runs/26355111891"
    }
  ]
}