{
  "_id": "6a3b9d685cdecea1d68270fd",
  "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": "2026-06-24 08:56:50 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": "e286984fae9d53521dc62c71122d9796",
  "_user": "yuanmingzhang",
  "_type": "src",
  "_file": "QTL.gCIMapping_3.4.tar.gz",
  "_fileid": "44b5fd2446250549158feead8b649c86b0147c6e88ee73d38361df35fbf572ed",
  "_filesize": 1927986,
  "_sha256": "44b5fd2446250549158feead8b649c86b0147c6e88ee73d38361df35fbf572ed",
  "_created": "2026-06-24T08:56:50.000Z",
  "_published": "2026-06-24T09:03:36.172Z",
  "_distro": "resolute",
  "_jobs": [
    {
      "job": 83155811134,
      "time": 168,
      "config": "linux-devel-arm64",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "7844814678"
    },
    {
      "job": 83155811086,
      "time": 219,
      "config": "linux-devel-x86_64",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "7844837020"
    },
    {
      "job": 83155811089,
      "time": 186,
      "config": "linux-release-arm64",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7844821060"
    },
    {
      "job": 83155811132,
      "time": 160,
      "config": "linux-release-x86_64",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7844810679"
    },
    {
      "job": 83155811065,
      "time": 127,
      "config": "macos-oldrel-arm64",
      "r": "4.5.3",
      "check": "OK",
      "artifact": "7844798004"
    },
    {
      "job": 83155811057,
      "time": 255,
      "config": "macos-oldrel-x86_64",
      "r": "4.5.3",
      "check": "OK",
      "artifact": "7844847697"
    },
    {
      "job": 83155811059,
      "time": 127,
      "config": "macos-release-arm64",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7844798054"
    },
    {
      "job": 83155811051,
      "time": 353,
      "config": "macos-release-x86_64",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7844886647"
    },
    {
      "job": 83155330987,
      "time": 158,
      "config": "source",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7844749201"
    },
    {
      "job": 83155811046,
      "time": 140,
      "config": "wasm-release",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7844803191"
    },
    {
      "job": 83155811064,
      "time": 146,
      "config": "windows-devel",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "7844805053"
    },
    {
      "job": 83155811054,
      "time": 164,
      "config": "windows-oldrel",
      "r": "4.5.3",
      "check": "OK",
      "artifact": "7844812015"
    },
    {
      "job": 83155811077,
      "time": 150,
      "config": "windows-release",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7844807263"
    }
  ],
  "_buildurl": "https://github.com/r-universe/yuanmingzhang/actions/runs/28086987046",
  "_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",
    "description": "",
    "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",
    "followers": 1
  },
  "_downloads": {
    "count": 359,
    "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": "16-20260322-1ubuntu1",
      "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": "2026-06-24T08:59:26.000Z",
      "distro": "resolute",
      "arch": "aarch64",
      "commit": "9a8f24338ad28a8efb7b5e23ddb5c87389e01a03",
      "fileid": "a608e63909a9e861f35efc5aa27ea8c65b36c9c7699a82350eca343c8ba8845f",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/yuanmingzhang/actions/runs/28086987046"
    },
    {
      "r": "4.7.0",
      "os": "linux",
      "version": "3.4",
      "date": "2026-06-24T09:00:08.000Z",
      "distro": "resolute",
      "arch": "x86_64",
      "commit": "9a8f24338ad28a8efb7b5e23ddb5c87389e01a03",
      "fileid": "3c02218f1def7a268fb69d69ca5ab4752a8b956acaacad1034d0c39cf1804f51",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/yuanmingzhang/actions/runs/28086987046"
    },
    {
      "r": "4.6.0",
      "os": "linux",
      "version": "3.4",
      "date": "2026-06-24T08:59:43.000Z",
      "distro": "resolute",
      "arch": "aarch64",
      "commit": "9a8f24338ad28a8efb7b5e23ddb5c87389e01a03",
      "fileid": "3c74b99b9c86f21e64af9f11760ca23123da248ed273028b64b0db9b679f028b",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/yuanmingzhang/actions/runs/28086987046"
    },
    {
      "r": "4.6.0",
      "os": "linux",
      "version": "3.4",
      "date": "2026-06-24T08:59:03.000Z",
      "distro": "resolute",
      "arch": "x86_64",
      "commit": "9a8f24338ad28a8efb7b5e23ddb5c87389e01a03",
      "fileid": "c2fc0af8a0b8153f9b55ae9dbcd3a48a2538c836dd38e2599b9bb5c29993102f",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/yuanmingzhang/actions/runs/28086987046"
    },
    {
      "r": "4.5.3",
      "os": "mac",
      "version": "3.4",
      "date": "2026-06-24T08:58:44.000Z",
      "arch": "aarch64",
      "commit": "9a8f24338ad28a8efb7b5e23ddb5c87389e01a03",
      "fileid": "347baa27d637f370f3ec35b1f5c116b3d529d148871363542a920c1bc83d032f",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/yuanmingzhang/actions/runs/28086987046"
    },
    {
      "r": "4.5.3",
      "os": "mac",
      "version": "3.4",
      "date": "2026-06-24T09:00:08.000Z",
      "arch": "x86_64",
      "commit": "9a8f24338ad28a8efb7b5e23ddb5c87389e01a03",
      "fileid": "494c74cedf13a24ef16bcd19a7af32eb288c3b9738a387dbaea8119cc19032b8",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/yuanmingzhang/actions/runs/28086987046"
    },
    {
      "r": "4.6.0",
      "os": "mac",
      "version": "3.4",
      "date": "2026-06-24T08:58:29.000Z",
      "arch": "aarch64",
      "commit": "9a8f24338ad28a8efb7b5e23ddb5c87389e01a03",
      "fileid": "03949ffee3a8d659ad55ea2ce71c24def6fc84ba1ef6d390388cc2ff754f4440",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/yuanmingzhang/actions/runs/28086987046"
    },
    {
      "r": "4.6.0",
      "os": "mac",
      "version": "3.4",
      "date": "2026-06-24T09:01:02.000Z",
      "arch": "x86_64",
      "commit": "9a8f24338ad28a8efb7b5e23ddb5c87389e01a03",
      "fileid": "70ae60b216a0eb089062fa22dfd936bd6e2a3ac95e5ad7b26d85ef801a974b64",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/yuanmingzhang/actions/runs/28086987046"
    },
    {
      "r": "4.6.0",
      "os": "wasm",
      "version": "3.4",
      "date": "2026-06-24T08:59:37.000Z",
      "arch": "emscripten",
      "commit": "9a8f24338ad28a8efb7b5e23ddb5c87389e01a03",
      "fileid": "ad0ebe4493f15d0fd0037828327e0a1075fa00ac0f1f0d7f0329e9ad6f2db9dd",
      "status": "success",
      "buildurl": "https://github.com/r-universe/yuanmingzhang/actions/runs/28086987046"
    },
    {
      "r": "4.7.0",
      "os": "win",
      "version": "3.4",
      "date": "2026-06-24T08:58:18.000Z",
      "arch": "x86_64",
      "commit": "9a8f24338ad28a8efb7b5e23ddb5c87389e01a03",
      "fileid": "9c8ea3ab759b07bd601f2996b482054a0fd0ea929b323776aea558452b723e02",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/yuanmingzhang/actions/runs/28086987046"
    },
    {
      "r": "4.5.3",
      "os": "win",
      "version": "3.4",
      "date": "2026-06-24T08:58:19.000Z",
      "arch": "x86_64",
      "commit": "9a8f24338ad28a8efb7b5e23ddb5c87389e01a03",
      "fileid": "d14e847ac6faf74569df6bf0f13e2d69e77b80a78fe643ed354f7611fa904075",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/yuanmingzhang/actions/runs/28086987046"
    },
    {
      "r": "4.6.0",
      "os": "win",
      "version": "3.4",
      "date": "2026-06-24T08:58:26.000Z",
      "arch": "x86_64",
      "commit": "9a8f24338ad28a8efb7b5e23ddb5c87389e01a03",
      "fileid": "402aaa096f13ec7ee15b95df85bb66e3b3651372c650cc65e5b696d76dbdf606",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/yuanmingzhang/actions/runs/28086987046"
    }
  ]
}