{
  "_id": "6a102463acfb0bcc41c8dbdb",
  "Package": "QTL.gCIMapping",
  "Type": "Package",
  "Title": "QTL Genome-Wide Composite Interval Mapping",
  "Version": "3.4",
  "Date": "2022-02-24",
  "Author": "Zhou Ya-Hui, Zhang Ya-Wen, Wen Yang-Jun, Wang Shi-Bo, and Zhang\nYuan-Ming",
  "Maintainer": "Yuanming Zhang<soyzhang@mail.hzau.edu.cn>",
  "Description": "Conduct multiple quantitative trait loci (QTL) and\nQTL-by-environment interaction (QEI) mapping via ordinary or\ncompressed variance component mixed models with random- or\nfixed QTL/QEI effects. First, each position on the genome is\ndetected in order to obtain a negative logarithm P-value curve\nagainst genome position. Then, all the peaks on each effect\n(additive or dominant) curve or on each locus curve are viewed\nas potential main-effect QTLs and QEIs, all their effects are\nincluded in a multi-locus model, their effects are estimated by\nboth least angle regression and empirical Bayes (or adaptive\nlasso) in backcross and F2 populations, and true QTLs and QEIs\nare identified by likelihood radio test. See Zhou et al. (2022)\n<doi:10.1093/bib/bbab596> and Wen et al. (2018)\n<doi:10.1093/bib/bby058>.",
  "Encoding": "UTF-8",
  "License": "GPL (>= 2)",
  "NeedsCompilation": "yes",
  "RoxygenNote": "7.1.2",
  "Packaged": {
    "Date": "2026-05-13 09:58:43 UTC",
    "User": "root"
  },
  "Config/pak/sysreqs": "libicu-dev",
  "Repository": "https://yuanmingzhang.r-universe.dev",
  "Date/Publication": "2022-02-24 17:30:02 UTC",
  "RemoteUrl": "https://github.com/cran/QTL.gCIMapping",
  "RemoteRef": "HEAD",
  "RemoteSha": "9a8f24338ad28a8efb7b5e23ddb5c87389e01a03",
  "MD5sum": "286abe906aa9eba555fc7354ff493ed3",
  "_user": "yuanmingzhang",
  "_type": "src",
  "_file": "QTL.gCIMapping_3.4.tar.gz",
  "_fileid": "ae0550c3e1caa9824185b6039e9c6b8de1c7891aad6ad3ef3feff13ca57a60ed",
  "_filesize": 1927798,
  "_sha256": "ae0550c3e1caa9824185b6039e9c6b8de1c7891aad6ad3ef3feff13ca57a60ed",
  "_created": "2026-05-13T09:58:43.000Z",
  "_published": "2026-05-22T09:39:47.381Z",
  "_distro": "noble",
  "_jobs": [
    {
      "job": 77354453269,
      "time": 160,
      "config": "linux-devel-arm64",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "6967100896"
    },
    {
      "job": 77354452999,
      "time": 165,
      "config": "linux-devel-x86_64",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "6967102768"
    },
    {
      "job": 77354453424,
      "time": 159,
      "config": "linux-release-arm64",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "6967100157"
    },
    {
      "job": 77354452953,
      "time": 162,
      "config": "linux-release-x86_64",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "6967101711"
    },
    {
      "job": 77354453760,
      "time": 145,
      "config": "macos-oldrel-arm64",
      "r": "4.5.3",
      "check": "OK",
      "artifact": "6967233741"
    },
    {
      "job": 77354452911,
      "time": 351,
      "config": "macos-oldrel-x86_64",
      "r": "4.5.3",
      "check": "OK",
      "artifact": "6967219704"
    },
    {
      "job": 77354452938,
      "time": 173,
      "config": "macos-release-arm64",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "6967204431"
    },
    {
      "job": 77354453238,
      "time": 251,
      "config": "macos-release-x86_64",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "6967137358"
    },
    {
      "job": 77354452578,
      "time": 167,
      "config": "source",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "6967038444"
    },
    {
      "job": 77354452490,
      "time": 116,
      "config": "wasm-release",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7157471080"
    },
    {
      "job": 77354452989,
      "time": 146,
      "config": "windows-devel",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "6967095745"
    },
    {
      "job": 77354453438,
      "time": 126,
      "config": "windows-oldrel",
      "r": "4.5.3",
      "check": "OK",
      "artifact": "6967088840"
    },
    {
      "job": 77354453009,
      "time": 179,
      "config": "windows-release",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "6967107814"
    }
  ],
  "_buildurl": "https://github.com/r-universe/yuanmingzhang/actions/runs/25791862508",
  "_status": "success",
  "_host": "GitHub-Actions",
  "_upstream": "https://github.com/cran/QTL.gCIMapping",
  "_commit": {
    "id": "9a8f24338ad28a8efb7b5e23ddb5c87389e01a03",
    "author": "Yuanming Zhang <soyzhang@mail.hzau.edu.cn>",
    "committer": "cran-robot <csardi.gabor+cran@gmail.com>",
    "message": "version 3.4\n",
    "time": 1645723802
  },
  "_maintainer": {
    "name": "Yuanming Zhang",
    "email": "soyzhang@mail.hzau.edu.cn",
    "login": "yuanmingzhang",
    "uuid": 34569080
  },
  "_registered": true,
  "_dependencies": [
    {
      "package": "R",
      "version": ">= 3.5.0",
      "role": "Depends"
    },
    {
      "package": "Rcpp",
      "role": "LinkingTo"
    },
    {
      "package": "Rcpp",
      "version": ">= 0.12.17",
      "role": "Imports"
    },
    {
      "package": "methods",
      "role": "Imports"
    },
    {
      "package": "openxlsx",
      "role": "Imports"
    },
    {
      "package": "readxl",
      "role": "Imports"
    },
    {
      "package": "lars",
      "role": "Imports"
    },
    {
      "package": "stringr",
      "role": "Imports"
    },
    {
      "package": "data.table",
      "role": "Imports"
    },
    {
      "package": "glmnet",
      "role": "Imports"
    },
    {
      "package": "doParallel",
      "role": "Imports"
    },
    {
      "package": "foreach",
      "role": "Imports"
    },
    {
      "package": "MASS",
      "role": "Imports"
    },
    {
      "package": "qtl",
      "role": "Imports"
    }
  ],
  "_owner": "cran",
  "_selfowned": true,
  "_usedby": 1,
  "_updates": [],
  "_tags": [],
  "_stars": 1,
  "_contributors": [
    {
      "user": "yuanmingzhang",
      "count": 8,
      "uuid": 34569080
    }
  ],
  "_userbio": {
    "uuid": 34569080,
    "type": "user",
    "name": "IIIVmrMLM.QEI"
  },
  "_downloads": {
    "count": 261,
    "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/QTL.gCIMapping"
  },
  "_searchresults": 2,
  "_topics": [
    "cpp"
  ],
  "_rbuild": "4.6.0",
  "_assets": [
    "extra/citation.cff",
    "extra/citation.html",
    "extra/citation.json",
    "extra/citation.txt",
    "extra/contents.json",
    "extra/QTL.gCIMapping.html",
    "manual.pdf"
  ],
  "_realowner": "yuanmingzhang",
  "_cranurl": false,
  "_releases": [
    {
      "version": "1.0",
      "date": "2018-04-24"
    },
    {
      "version": "2.0",
      "date": "2018-04-30"
    },
    {
      "version": "3.0",
      "date": "2018-06-16"
    },
    {
      "version": "3.1",
      "date": "2018-10-17"
    },
    {
      "version": "3.2",
      "date": "2019-11-12"
    },
    {
      "version": "3.3",
      "date": "2020-05-01"
    },
    {
      "version": "3.3.1",
      "date": "2020-10-12"
    },
    {
      "version": "3.4",
      "date": "2022-02-24"
    }
  ],
  "_exports": [
    "Dodata",
    "markerinsert",
    "QTL.gCIMapping",
    "Readdata",
    "WangF",
    "WangS",
    "WenF",
    "WenS",
    "ZhouF",
    "ZhouMethod",
    "ZhouMethod_single_env"
  ],
  "_datasets": [
    {
      "name": "DHdata",
      "title": "DH example data",
      "object": "DHdata",
      "file": "DHdata.rda",
      "class": [
        "data.frame"
      ],
      "fields": [
        "V1",
        "V2",
        "V3",
        "V4",
        "V5",
        "V6",
        "V7",
        "V8",
        "V9",
        "V10",
        "V11",
        "V12"
      ],
      "rows": 7,
      "table": true,
      "tojson": true
    },
    {
      "name": "F2data",
      "title": "F2 example data from 2 environments",
      "object": "F2data",
      "file": "F2data.rda",
      "class": [
        "data.table",
        "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"
      ],
      "rows": 105,
      "table": true,
      "tojson": true
    }
  ],
  "_help": [
    {
      "page": "DHdata",
      "title": "DH example data",
      "topics": [
        "chr",
        "DHdata",
        "marker",
        "pos"
      ]
    },
    {
      "page": "Dodata",
      "title": "Process raw data",
      "topics": [
        "Dodata"
      ]
    },
    {
      "page": "F2data",
      "title": "F2 example data from 2 environments",
      "topics": [
        "F001",
        "F002",
        "F003",
        "F2data"
      ]
    },
    {
      "page": "markerinsert",
      "title": "To insert marker in genotype.",
      "topics": [
        "markerinsert"
      ]
    },
    {
      "page": "QTL.gCIMapping",
      "title": "QTL Genome-Wide Composite Interval Mapping",
      "topics": [
        "QTL.gCIMapping"
      ]
    },
    {
      "page": "Readdata",
      "title": "Read raw data",
      "topics": [
        "Readdata"
      ]
    },
    {
      "page": "WangF",
      "title": "To perform QTL mapping with wang method",
      "topics": [
        "WangF"
      ]
    },
    {
      "page": "WangS",
      "title": "The second step of wang method",
      "topics": [
        "WangS"
      ]
    },
    {
      "page": "WenF",
      "title": "To perform QTL mapping with Wen method",
      "topics": [
        "WenF"
      ]
    },
    {
      "page": "WenS",
      "title": "The second step of Wen method",
      "topics": [
        "WenS"
      ]
    },
    {
      "page": "ZhouF",
      "title": "To perform QTL mapping with Wen method",
      "topics": [
        "ZhouF"
      ]
    },
    {
      "page": "ZhouMethod",
      "title": "The second step of Zhou method for multiple environments",
      "topics": [
        "ZhouMethod"
      ]
    },
    {
      "page": "ZhouMethod_single_env",
      "title": "The second step of Zhou method for single environment",
      "topics": [
        "ZhouMethod_single_env"
      ]
    }
  ],
  "_rundeps": [
    "cellranger",
    "cli",
    "codetools",
    "cpp11",
    "crayon",
    "data.table",
    "doParallel",
    "foreach",
    "glmnet",
    "glue",
    "hms",
    "iterators",
    "lars",
    "lattice",
    "lifecycle",
    "magrittr",
    "MASS",
    "Matrix",
    "openxlsx",
    "pillar",
    "pkgconfig",
    "prettyunits",
    "progress",
    "qtl",
    "R6",
    "Rcpp",
    "RcppEigen",
    "readxl",
    "rematch",
    "rlang",
    "shape",
    "stringi",
    "stringr",
    "survival",
    "tibble",
    "utf8",
    "vctrs",
    "zip"
  ],
  "_sysdeps": [
    {
      "shlib": "libstdc++",
      "package": "libstdc++6",
      "source": "gcc",
      "version": "14.2.0-4ubuntu2~24.04.1",
      "name": "c++",
      "homepage": "http://gcc.gnu.org/",
      "description": "GNU Standard C++ Library v3"
    }
  ],
  "_score": 1.4771212547196624,
  "_indexed": true,
  "_nocasepkg": "qtl.gcimapping",
  "_universes": [
    "yuanmingzhang"
  ],
  "_binaries": [
    {
      "r": "4.7.0",
      "os": "linux",
      "version": "3.4",
      "date": "2026-05-13T10:00:55.000Z",
      "distro": "noble",
      "arch": "aarch64",
      "commit": "9a8f24338ad28a8efb7b5e23ddb5c87389e01a03",
      "fileid": "b3c96c16acd2a38efb6d56802f3c61a406e03d525426b91340affba0fec8aeff",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/yuanmingzhang/actions/runs/25791862508"
    },
    {
      "r": "4.7.0",
      "os": "linux",
      "version": "3.4",
      "date": "2026-05-13T10:00:54.000Z",
      "distro": "noble",
      "arch": "x86_64",
      "commit": "9a8f24338ad28a8efb7b5e23ddb5c87389e01a03",
      "fileid": "8128d727bee0906bcfdd5a3910b66e8f53dd9bfa7ccac908487c4ae88be8fc0a",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/yuanmingzhang/actions/runs/25791862508"
    },
    {
      "r": "4.6.0",
      "os": "linux",
      "version": "3.4",
      "date": "2026-05-13T10:00:54.000Z",
      "distro": "noble",
      "arch": "aarch64",
      "commit": "9a8f24338ad28a8efb7b5e23ddb5c87389e01a03",
      "fileid": "357300b991e099322451e7c1bce4a7659647782f38f144245873c13e4cff1cd6",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/yuanmingzhang/actions/runs/25791862508"
    },
    {
      "r": "4.6.0",
      "os": "linux",
      "version": "3.4",
      "date": "2026-05-13T10:00:53.000Z",
      "distro": "noble",
      "arch": "x86_64",
      "commit": "9a8f24338ad28a8efb7b5e23ddb5c87389e01a03",
      "fileid": "794b3a2c3289e4fbd27e63898bd3ac02a51b879339b4a4cfd4efdbd75d0bb158",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/yuanmingzhang/actions/runs/25791862508"
    },
    {
      "r": "4.5.3",
      "os": "mac",
      "version": "3.4",
      "date": "2026-05-13T10:07:27.000Z",
      "arch": "aarch64",
      "commit": "9a8f24338ad28a8efb7b5e23ddb5c87389e01a03",
      "fileid": "b84da672eb62d0088c9dc78278ce01307dd6faec88b3bb2ef91f7f0792a85bab",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/yuanmingzhang/actions/runs/25791862508"
    },
    {
      "r": "4.5.3",
      "os": "mac",
      "version": "3.4",
      "date": "2026-05-13T10:05:09.000Z",
      "arch": "x86_64",
      "commit": "9a8f24338ad28a8efb7b5e23ddb5c87389e01a03",
      "fileid": "f3b2d1f4d6c02561d569b8e1c778efb4e1116de2853a55ad61ffb51d8e5d9e31",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/yuanmingzhang/actions/runs/25791862508"
    },
    {
      "r": "4.6.0",
      "os": "mac",
      "version": "3.4",
      "date": "2026-05-13T10:05:31.000Z",
      "arch": "aarch64",
      "commit": "9a8f24338ad28a8efb7b5e23ddb5c87389e01a03",
      "fileid": "b1d56f59853f0260ba9009a12fe54af51b08328e59e93832e1b15463b14ffb23",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/yuanmingzhang/actions/runs/25791862508"
    },
    {
      "r": "4.6.0",
      "os": "mac",
      "version": "3.4",
      "date": "2026-05-13T10:01:45.000Z",
      "arch": "x86_64",
      "commit": "9a8f24338ad28a8efb7b5e23ddb5c87389e01a03",
      "fileid": "c28a103d63422e592c17f9fc6483030e72eb032a1ce7884ce57a66f7633e19ca",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/yuanmingzhang/actions/runs/25791862508"
    },
    {
      "r": "4.7.0",
      "os": "win",
      "version": "3.4",
      "date": "2026-05-13T10:00:11.000Z",
      "arch": "x86_64",
      "commit": "9a8f24338ad28a8efb7b5e23ddb5c87389e01a03",
      "fileid": "49c43060f6cfdb25511fe261eacd4e0b865780596cf1fac165a7af485955b342",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/yuanmingzhang/actions/runs/25791862508"
    },
    {
      "r": "4.5.3",
      "os": "win",
      "version": "3.4",
      "date": "2026-05-13T09:59:57.000Z",
      "arch": "x86_64",
      "commit": "9a8f24338ad28a8efb7b5e23ddb5c87389e01a03",
      "fileid": "567775231a4257be2c308021d943a23b6dab74463d6a3cc32adc760c52f988e1",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/yuanmingzhang/actions/runs/25791862508"
    },
    {
      "r": "4.6.0",
      "os": "win",
      "version": "3.4",
      "date": "2026-05-13T10:00:27.000Z",
      "arch": "x86_64",
      "commit": "9a8f24338ad28a8efb7b5e23ddb5c87389e01a03",
      "fileid": "dacf654eb70a502be8cded6faeca7df0c19eacebce8656dc2ab357417ab0cb42",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/yuanmingzhang/actions/runs/25791862508"
    },
    {
      "r": "4.6.0",
      "os": "wasm",
      "version": "3.4",
      "date": "2026-05-22T09:39:25.000Z",
      "arch": "emscripten",
      "commit": "9a8f24338ad28a8efb7b5e23ddb5c87389e01a03",
      "fileid": "b9132bbee0a4b9ba4bc3a16ecaf7f5e7ae04e2323e4f1a02c739b135cc596aaa",
      "status": "success",
      "buildurl": "https://github.com/r-universe/yuanmingzhang/actions/runs/25791862508"
    }
  ]
}