{
  "_id": "6acca64da14063b82c3a75b4",
  "Package": "inbreedR",
  "Title": "Analysing Inbreeding Based on Genetic Markers",
  "Version": "0.3.3",
  "Authors@R": "c(\nperson(c(\"Martin\", \"A.\"), \"Stoffel\", email= \"martin.adam.stoffel@gmail.com\",\nrole = c(\"aut\", \"cre\")),\nperson(\"Mareike\", \"Esser\", email = \"messer@uni-bielefeld.de\" ,role = c(\"aut\")),\nperson(\"Joseph\", \"Hoffman\", email = \"j_i_hoffman@hotmail.com\", role = c(\"aut\")),\nperson(\"Marty\", \"Kardos\", email = \"marty.kardos@ebc.uu.se\", role = c(\"aut\")))",
  "Description": "A framework for analysing inbreeding and\nheterozygosity-fitness correlations (HFCs) based on\nmicrosatellite and SNP markers.",
  "License": "GPL-2",
  "LazyData": "true",
  "VignetteBuilder": "knitr",
  "RoxygenNote": "6.0.1",
  "Repository": "https://mastoffel.r-universe.dev",
  "Date/Publication": "2024-10-28 17:00:57 UTC",
  "RemoteUrl": "https://github.com/mastoffel/inbreedr",
  "RemoteRef": "HEAD",
  "RemoteSha": "01c8125038741333c64deea2fcd8d00ad9551bf6",
  "NeedsCompilation": "no",
  "Packaged": {
    "Date": "2026-10-12 09:17:08 UTC",
    "User": "root"
  },
  "Author": "Martin A. Stoffel [aut, cre],\nMareike Esser [aut],\nJoseph Hoffman [aut],\nMarty Kardos [aut]",
  "Maintainer": "Martin A. Stoffel <martin.adam.stoffel@gmail.com>",
  "_user": "mastoffel",
  "_type": "src",
  "_file": "inbreedR_0.3.3.tar.gz",
  "_fileid": "https://r2.ropensci.org/d9b7c8b74911935bd00d827fd800c725a3695af466c609ad110444b232189475",
  "_filesize": 555701,
  "_sha256": "d9b7c8b74911935bd00d827fd800c725a3695af466c609ad110444b232189475",
  "_expires": "2027-01-20T09:20:11.000Z",
  "_created": "2026-10-12T09:17:08.000Z",
  "_published": "2026-10-12T09:20:13.747Z",
  "_buildurl": "https://github.com/r-universe/mastoffel/actions/runs/38228469811",
  "_status": "success",
  "_host": "GitHub-Actions",
  "_jobs": [
    {
      "job": 114743303943,
      "time": 116,
      "config": "linux-devel-x86_64",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "11737492624"
    },
    {
      "job": 114743303800,
      "time": 143,
      "config": "linux-release-x86_64",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "11737916585"
    },
    {
      "job": 114743303828,
      "time": 93,
      "config": "macos-oldrel-arm64",
      "r": "4.5.3",
      "check": "OK",
      "artifact": "11737896405"
    },
    {
      "job": 114743304034,
      "time": 118,
      "config": "macos-release-arm64",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "11737302864"
    },
    {
      "job": 114741875315,
      "time": 230,
      "config": "source",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "11737317430"
    },
    {
      "job": 114743303746,
      "time": 81,
      "config": "wasm-release",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "11737517475"
    },
    {
      "job": 114743303916,
      "time": 70,
      "config": "windows-devel-x86_64",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "11737137790"
    },
    {
      "job": 114743303932,
      "time": 80,
      "config": "windows-oldrel-x86_64",
      "r": "4.5.3",
      "check": "OK",
      "artifact": "11737297701"
    },
    {
      "job": 114743303910,
      "time": 95,
      "config": "windows-release-x86_64",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "11737906441"
    }
  ],
  "_upstream": "https://github.com/mastoffel/inbreedr",
  "_commit": {
    "id": "01c8125038741333c64deea2fcd8d00ad9551bf6",
    "author": "Martin Stoffel <martin.adam.stoffel@gmail.com>",
    "committer": "GitHub <noreply@github.com>",
    "message": "Update README.md",
    "time": 1730134857
  },
  "_maintainer": {
    "name": "Martin A. Stoffel",
    "email": "martin.adam.stoffel@gmail.com",
    "login": "mastoffel",
    "twitter": "@m_a_sto",
    "description": "ML Engineer, Evolutionary Geneticist\n",
    "uuid": 7348440
  },
  "_distro": "resolute",
  "_registered": true,
  "_dependencies": [
    {
      "package": "R",
      "version": ">= 3.2.1",
      "role": "Depends"
    },
    {
      "package": "data.table",
      "version": ">= 1.9.6",
      "role": "Imports"
    },
    {
      "package": "parallel",
      "role": "Imports"
    },
    {
      "package": "stats",
      "role": "Imports"
    },
    {
      "package": "graphics",
      "role": "Imports"
    },
    {
      "package": "testthat",
      "version": ">= 0.10.0",
      "role": "Suggests"
    },
    {
      "package": "knitr",
      "role": "Suggests"
    },
    {
      "package": "rmarkdown",
      "role": "Suggests"
    },
    {
      "package": "covr",
      "role": "Suggests"
    }
  ],
  "_owner": "mastoffel",
  "_selfowned": true,
  "_usedby": 0,
  "_updates": [],
  "_tags": [],
  "_stars": 3,
  "_contributors": [
    {
      "user": "mastoffel",
      "count": 192,
      "uuid": 7348440
    }
  ],
  "_userbio": {
    "uuid": 7348440,
    "type": "user",
    "name": "Martin Stoffel",
    "followers": 51,
    "description": "ML Engineer, Evolutionary Geneticist\r\n"
  },
  "_downloads": {
    "count": 377,
    "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/inbreedR"
  },
  "_mentions": 11,
  "_devurl": "https://github.com/mastoffel/inbreedr",
  "_searchresults": 65,
  "_rbuild": "4.6.1",
  "_assets": [
    "extra/citation.cff",
    "extra/citation.html",
    "extra/citation.json",
    "extra/citation.txt",
    "extra/contents.json",
    "extra/inbreedR.html",
    "extra/manual.pdf",
    "extra/NEWS.html",
    "extra/NEWS.txt",
    "extra/readme.html",
    "extra/readme.md"
  ],
  "_homeurl": "https://github.com/mastoffel/inbreedr",
  "_realowner": "mastoffel",
  "_cranurl": true,
  "_releases": [
    {
      "version": "0.1.0",
      "date": "2015-09-05"
    },
    {
      "version": "0.2.0",
      "date": "2015-10-06"
    },
    {
      "version": "0.3.0",
      "date": "2015-11-30"
    },
    {
      "version": "0.3.1",
      "date": "2016-03-21"
    },
    {
      "version": "0.3.2",
      "date": "2016-09-09"
    },
    {
      "version": "0.3.3",
      "date": "2022-02-02"
    }
  ],
  "_exports": [
    "check_data",
    "convert_raw",
    "g2_microsats",
    "g2_snps",
    "HHC",
    "MLH",
    "r2_hf",
    "r2_Wf",
    "simulate_g2",
    "simulate_r2_hf",
    "sMLH"
  ],
  "_datasets": [
    {
      "name": "bodyweight",
      "title": "Oldfield mouse bodyweight data",
      "object": "bodyweight",
      "class": [
        "numeric"
      ],
      "fields": [],
      "table": false,
      "tojson": true
    },
    {
      "name": "mouse_msats",
      "title": "Oldfield mouse microsatellite data",
      "object": "mouse_msats",
      "class": [
        "data.frame"
      ],
      "fields": [
        "Pml01.1",
        "Pml01.2",
        "Po3-68.1",
        "Po3-68.2",
        "Plgt58.1",
        "Plgt58.2",
        "Plgt62.1",
        "Plgt62.2",
        "Pml04.1",
        "Pml04.2",
        "Pml06.1",
        "Pml06.2",
        "Pml07.1",
        "Pml07.2",
        "Po97.1",
        "Po97.2",
        "Pml10.1",
        "Pml10.2",
        "Pml2.1",
        "Pml2.2",
        "Plgt66.1",
        "Plgt66.2",
        "Pml11.1",
        "Pml11.2"
      ],
      "rows": 36,
      "table": true,
      "tojson": true
    },
    {
      "name": "mouse_snps",
      "title": "Oldfield mouse SNP data",
      "object": "mouse_snps",
      "class": [
        "data.frame"
      ],
      "fields": [],
      "rows": 36,
      "table": true,
      "tojson": true
    }
  ],
  "_help": [
    {
      "page": "bodyweight",
      "title": "Oldfield mouse bodyweight data",
      "topics": [
        "bodyweight"
      ]
    },
    {
      "page": "check_data",
      "title": "Checks the data for consistency with the inbreedR working format.",
      "topics": [
        "check_data"
      ]
    },
    {
      "page": "convert_raw",
      "title": "Genotype format converter",
      "topics": [
        "convert_raw"
      ]
    },
    {
      "page": "g2_microsats",
      "title": "Estimating g2 from microsatellite data",
      "topics": [
        "g2_microsats"
      ]
    },
    {
      "page": "g2_snps",
      "title": "Estimating g2 from larger datasets, such as SNPs",
      "topics": [
        "g2_snps"
      ]
    },
    {
      "page": "HHC",
      "title": "Calculates heterzygosity-heterozygosity correlations with standardized multilocus heterozygosities (sMLH)",
      "topics": [
        "HHC"
      ]
    },
    {
      "page": "inbreedR",
      "title": "inbreedR: Workflows for analysing variance in inbreeding and HFCs based on SNP or microsatellite markers.",
      "topics": [
        "inbreedR-package",
        "inbreedR"
      ]
    },
    {
      "page": "MLH",
      "title": "Calculate multilocus heterozygosity (MLH)",
      "topics": [
        "MLH"
      ]
    },
    {
      "page": "mouse_msats",
      "title": "Oldfield mouse microsatellite data",
      "topics": [
        "mouse_msats"
      ]
    },
    {
      "page": "mouse_snps",
      "title": "Oldfield mouse SNP data",
      "topics": [
        "mouse_snps"
      ]
    },
    {
      "page": "plot.inbreed",
      "title": "Plot an inbreed object",
      "topics": [
        "plot.inbreed"
      ]
    },
    {
      "page": "print.inbreed",
      "title": "Print an inbreed object",
      "topics": [
        "print.inbreed"
      ]
    },
    {
      "page": "r2_hf",
      "title": "Expected r2 between standardized multilocus heterozygosity (h) and inbreeding level (f)",
      "topics": [
        "r2_hf"
      ]
    },
    {
      "page": "r2_Wf",
      "title": "Expected r2 between inbreeding level (f) and fitness (W)",
      "topics": [
        "r2_Wf"
      ]
    },
    {
      "page": "simulate_g2",
      "title": "Simulate g2",
      "topics": [
        "simulate_g2"
      ]
    },
    {
      "page": "simulate_r2_hf",
      "title": "Calculates the expected squared correlation between heteorzygosity and inbreeding for simulated marker sets",
      "topics": [
        "simulate_r2_hf"
      ]
    },
    {
      "page": "sMLH",
      "title": "Calculate multilocus heterozygosity (MLH)",
      "topics": [
        "sMLH"
      ]
    }
  ],
  "_readme": "https://github.com/mastoffel/inbreedr/raw/HEAD/README.md",
  "_rundeps": [
    "data.table"
  ],
  "_vignettes": [
    {
      "source": "inbreedR_step_by_step.Rmd",
      "filename": "inbreedR_step_by_step.html",
      "title": "inbreedR step by step",
      "author": "Martin A. Stoffel",
      "engine": "knitr::rmarkdown",
      "headings": [
        "inbreedR",
        "Installation",
        "inbreedR contains the following functions:",
        "Example datasets",
        "Data format and checking",
        "Conversion from a more common format",
        "Loading and extracting genotype information from VCF files",
        "A short theory of heterozygosity-fitness correlations (HFC)",
        "Identity disequilibrium",
        "HFC parameters",
        "Workflow for estimating the impact of inbreeding on fitness using HFC",
        "Sensitivity to the number of genetic markers",
        "Note on calculating g2 for real-world SNP datasets",
        "Extracting raw data from inbreedR objects",
        "Literature"
      ],
      "created": "2015-06-03 12:13:05",
      "modified": "2016-09-08 12:02:07",
      "commits": 44
    }
  ],
  "_score": 5.989004615698537,
  "_indexed": true,
  "_nocasepkg": "inbreedr",
  "_universes": [
    "mastoffel"
  ],
  "_binaries": [
    {
      "r": "4.7.0",
      "os": "linux",
      "version": "0.3.3",
      "date": "2026-10-12T09:19:04.000Z",
      "distro": "resolute",
      "commit": "01c8125038741333c64deea2fcd8d00ad9551bf6",
      "fileid": "https://r2.ropensci.org/8a250401bb8dfd71e29177540b535c289c4b3ead3a4805c4d18c22d56a384baa",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/mastoffel/actions/runs/38228469811"
    },
    {
      "r": "4.6.1",
      "os": "linux",
      "version": "0.3.3",
      "date": "2026-10-12T09:19:34.000Z",
      "distro": "resolute",
      "commit": "01c8125038741333c64deea2fcd8d00ad9551bf6",
      "fileid": "https://r2.ropensci.org/b5700e5e07c74116240aa82a2ed4d43c3f59a98f3f6621880c2e1f9ffcf5ce10",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/mastoffel/actions/runs/38228469811"
    },
    {
      "r": "4.5.3",
      "os": "mac",
      "version": "0.3.3",
      "date": "2026-10-12T09:18:53.000Z",
      "commit": "01c8125038741333c64deea2fcd8d00ad9551bf6",
      "fileid": "https://r2.ropensci.org/4b88d943c05e2e41d87281dc0869a7e7c9f917043dc5c888503167b348b4a871",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/mastoffel/actions/runs/38228469811"
    },
    {
      "r": "4.6.1",
      "os": "mac",
      "version": "0.3.3",
      "date": "2026-10-12T09:19:18.000Z",
      "commit": "01c8125038741333c64deea2fcd8d00ad9551bf6",
      "fileid": "https://r2.ropensci.org/0d9225a04c9e2f244e2006746616638074f31c621200b22b58b4911dac646332",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/mastoffel/actions/runs/38228469811"
    },
    {
      "r": "4.6.0",
      "os": "wasm",
      "version": "0.3.3",
      "date": "2026-10-12T09:18:51.000Z",
      "commit": "01c8125038741333c64deea2fcd8d00ad9551bf6",
      "fileid": "https://r2.ropensci.org/d20bfddcaa7ce2a9e97ef246185f6fda56a554387e780e5554c161ca0af378a6",
      "status": "success",
      "buildurl": "https://github.com/r-universe/mastoffel/actions/runs/38228469811"
    },
    {
      "r": "4.7.0",
      "os": "win",
      "version": "0.3.3",
      "date": "2026-10-12T09:18:14.000Z",
      "commit": "01c8125038741333c64deea2fcd8d00ad9551bf6",
      "fileid": "https://r2.ropensci.org/bee4fad5cfa041b83be655a45963d0e3b4378181a525bb609ace7c103976fc47",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/mastoffel/actions/runs/38228469811"
    },
    {
      "r": "4.5.3",
      "os": "win",
      "version": "0.3.3",
      "date": "2026-10-12T09:18:27.000Z",
      "commit": "01c8125038741333c64deea2fcd8d00ad9551bf6",
      "fileid": "https://r2.ropensci.org/5f5c7f98656c067f1d1b4a24957043d1ec17359546bcb444ace5cc586373c45f",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/mastoffel/actions/runs/38228469811"
    },
    {
      "r": "4.6.1",
      "os": "win",
      "version": "0.3.3",
      "date": "2026-10-12T09:18:44.000Z",
      "commit": "01c8125038741333c64deea2fcd8d00ad9551bf6",
      "fileid": "https://r2.ropensci.org/b8bb310c6f2ce4332c5c7648e0a799be0990ffb6193d71c52703c060d6d431dd",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/mastoffel/actions/runs/38228469811"
    }
  ]
}