{
  "_id": "6aca4271fe5cc25786e86164",
  "Package": "ZIBR",
  "Type": "Package",
  "Title": "A Zero-Inflated Beta Random Effect Model",
  "Version": "1.0.2.9000",
  "Date": "2026-02-05",
  "Authors@R": "c(person(\"Eric\", \"Zhang Chen\", email = \"chvlyl@gmail.com\", role = c(\"aut\", \"cph\")),\nperson(\"Charlie\", \"Bushman\", email = \"ctbushman@gmail.com\", role = c(\"cre\")))",
  "Description": "A two-part zero-inflated Beta regression model with random\neffects (ZIBR) for testing the association between microbial\nabundance and clinical covariates for longitudinal microbiome\ndata. Eric Z. Chen and Hongzhe Li (2016)\n<doi:10.1093/bioinformatics/btw308>.",
  "License": "MIT + file LICENSE",
  "LazyData": "TRUE",
  "RoxygenNote": "7.2.3",
  "Encoding": "UTF-8",
  "Config/testthat/edition": "3",
  "VignetteBuilder": "knitr",
  "URL": "https://github.com/PennChopMicrobiomeProgram/ZIBR",
  "BugReports": "https://github.com/PennChopMicrobiomeProgram/ZIBR/issues",
  "Repository": "https://pennchopmicrobiomeprogram.r-universe.dev",
  "Date/Publication": "2026-03-06 14:49:37 UTC",
  "RemoteUrl": "https://github.com/pennchopmicrobiomeprogram/zibr",
  "RemoteRef": "HEAD",
  "RemoteSha": "a8eed5ee045fbcf9c1d45ac2acda0f9fd102f552",
  "NeedsCompilation": "no",
  "Packaged": {
    "Date": "2026-10-10 13:43:14 UTC",
    "User": "root"
  },
  "Author": "Eric Zhang Chen [aut, cph],\nCharlie Bushman [cre]",
  "Maintainer": "Charlie Bushman <ctbushman@gmail.com>",
  "_user": "pennchopmicrobiomeprogram",
  "_type": "src",
  "_file": "ZIBR_1.0.2.9000.tar.gz",
  "_fileid": "https://r2.ropensci.org/852ddee44632dbf47e1d6707f2136f740a6900c47a15fc6bd19acbf7c5b6b3d0",
  "_filesize": 717077,
  "_sha256": "852ddee44632dbf47e1d6707f2136f740a6900c47a15fc6bd19acbf7c5b6b3d0",
  "_expires": "2027-01-18T13:49:35.000Z",
  "_created": "2026-10-10T13:43:14.000Z",
  "_published": "2026-10-10T13:49:36.945Z",
  "_buildurl": "https://github.com/r-universe/pennchopmicrobiomeprogram/actions/runs/38056556451",
  "_status": "success",
  "_host": "GitHub-Actions",
  "_jobs": [
    {
      "job": 114226900760,
      "time": 119,
      "config": "linux-devel-x86_64",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "11671153261"
    },
    {
      "job": 114226900809,
      "time": 114,
      "config": "linux-release-x86_64",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "11671173236"
    },
    {
      "job": 114226900765,
      "time": 162,
      "config": "macos-oldrel-arm64",
      "r": "4.5.3",
      "check": "OK",
      "artifact": "11671797927"
    },
    {
      "job": 114226900827,
      "time": 171,
      "config": "macos-release-arm64",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "11671788165"
    },
    {
      "job": 114226212012,
      "time": 222,
      "config": "source",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "11671957371"
    },
    {
      "job": 114226900821,
      "time": 92,
      "config": "wasm-release",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "11671937530"
    },
    {
      "job": 114226900834,
      "time": 97,
      "config": "windows-devel-x86_64",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "11671196983"
    },
    {
      "job": 114226900757,
      "time": 86,
      "config": "windows-oldrel-x86_64",
      "r": "4.5.3",
      "check": "OK",
      "artifact": "11671366866"
    },
    {
      "job": 114226900881,
      "time": 66,
      "config": "windows-release-x86_64",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "11671757608"
    }
  ],
  "_upstream": "https://github.com/pennchopmicrobiomeprogram/zibr",
  "_commit": {
    "id": "a8eed5ee045fbcf9c1d45ac2acda0f9fd102f552",
    "author": "Kyle Bittinger <kylebittinger@gmail.com>",
    "committer": "GitHub <noreply@github.com>",
    "message": "Merge pull request #25 from PennChopMicrobiomeProgram/clean-up-tests\n\nClean up test code",
    "time": 1772808577
  },
  "_maintainer": {
    "name": "Charlie Bushman",
    "email": "ctbushman@gmail.com",
    "login": "ulthran",
    "description": "",
    "uuid": 14882396
  },
  "_distro": "resolute",
  "_registered": true,
  "_dependencies": [
    {
      "package": "R",
      "version": ">= 2.10",
      "role": "Depends"
    },
    {
      "package": "statmod",
      "role": "Depends"
    },
    {
      "package": "betareg",
      "role": "Suggests"
    },
    {
      "package": "dplyr",
      "role": "Suggests"
    },
    {
      "package": "lme4",
      "version": ">= 1.1-34",
      "role": "Suggests"
    },
    {
      "package": "nlme",
      "role": "Suggests"
    },
    {
      "package": "knitr",
      "role": "Suggests"
    },
    {
      "package": "rmarkdown",
      "role": "Suggests"
    },
    {
      "package": "testthat",
      "version": ">= 3.0.0",
      "role": "Suggests"
    },
    {
      "package": "tibble",
      "role": "Suggests"
    }
  ],
  "_owner": "pennchopmicrobiomeprogram",
  "_selfowned": true,
  "_usedby": 0,
  "_updates": [
    {
      "week": "2026-06",
      "n": 2
    },
    {
      "week": "2026-10",
      "n": 1
    }
  ],
  "_tags": [
    {
      "name": "v1.0.3",
      "date": "2026-02-05"
    }
  ],
  "_stars": 30,
  "_contributors": [
    {
      "user": "ulthran",
      "count": 71,
      "uuid": 14882396
    },
    {
      "user": "chvlyl",
      "count": 56,
      "uuid": 10962574
    },
    {
      "user": "kylebittinger",
      "count": 7,
      "uuid": 6689
    },
    {
      "user": "copilot",
      "count": 3,
      "uuid": 198982749
    },
    {
      "user": "marwahaha",
      "count": 1,
      "uuid": 2541209
    }
  ],
  "_userbio": {
    "uuid": 12732995,
    "type": "organization",
    "name": "PennChopMicrobiomeProgram",
    "followers": 9,
    "description": "Bioinformatics software for microbiome science"
  },
  "_downloads": {
    "count": 274,
    "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/ZIBR"
  },
  "_devurl": "https://github.com/pennchopmicrobiomeprogram/zibr",
  "_searchresults": 28,
  "_rbuild": "4.6.1",
  "_assets": [
    "extra/citation.cff",
    "extra/citation.html",
    "extra/citation.json",
    "extra/citation.txt",
    "extra/contents.json",
    "extra/manual.pdf",
    "extra/NEWS.html",
    "extra/NEWS.txt",
    "extra/readme.html",
    "extra/readme.md",
    "extra/ZIBR.html",
    "LICENSE"
  ],
  "_homeurl": "https://github.com/pennchopmicrobiomeprogram/zibr",
  "_realowner": "pennchopmicrobiomeprogram",
  "_cranurl": true,
  "_releases": [
    {
      "version": "1.0.2",
      "date": "2023-10-17"
    },
    {
      "version": "1.0.3",
      "date": "2026-02-05"
    }
  ],
  "_exports": [
    "simulate_zero_inflated_beta_random_effect_data",
    "zibr"
  ],
  "_datasets": [
    {
      "name": "ibd",
      "title": "Longitudinal human microbiome data",
      "object": "ibd",
      "class": [
        "data.frame"
      ],
      "fields": [
        "Sample",
        "Subject",
        "Time",
        "Treatment",
        "Abundance"
      ],
      "rows": 236,
      "table": true,
      "tojson": true
    }
  ],
  "_help": [
    {
      "page": "fit_beta_random_effect",
      "title": "Fit beta random effect",
      "topics": [
        "fit_beta_random_effect"
      ]
    },
    {
      "page": "fit_logistic_random_effect",
      "title": "Fit logisitic random effect",
      "topics": [
        "fit_logistic_random_effect"
      ]
    },
    {
      "page": "fit_zero_inflated_beta_random_effect",
      "title": "Fit zero inflated beta random effect",
      "topics": [
        "fit_zero_inflated_beta_random_effect"
      ]
    },
    {
      "page": "ibd",
      "title": "Longitudinal human microbiome data",
      "topics": [
        "ibd"
      ]
    },
    {
      "page": "simulate_beta_random_effect_data",
      "title": "Simulate beta data",
      "topics": [
        "simulate_beta_random_effect_data"
      ]
    },
    {
      "page": "simulate_logistic_data",
      "title": "Simulate logistic data",
      "topics": [
        "simulate_logistic_data"
      ]
    },
    {
      "page": "simulate_zero_inflated_beta_random_effect_data",
      "title": "Simulate data according to zero-inflated beta random effects model",
      "topics": [
        "simulate_zero_inflated_beta_random_effect_data"
      ]
    },
    {
      "page": "zibr",
      "title": "Fit zero-inflated beta regression with random effects",
      "topics": [
        "zibr"
      ]
    }
  ],
  "_readme": "https://github.com/pennchopmicrobiomeprogram/zibr/raw/HEAD/README.md",
  "_rundeps": [
    "statmod"
  ],
  "_vignettes": [
    {
      "source": "zibr.Rmd",
      "filename": "zibr.html",
      "title": "ZIBR: Zero-Inflated Beta regression model with Random effects",
      "engine": "knitr::rmarkdown",
      "headings": [
        "Simulated Data",
        "Real Data",
        "Real Data (from paper)"
      ],
      "created": "2023-10-12 17:43:57",
      "modified": "2026-02-04 23:00:05",
      "commits": 4
    }
  ],
  "_score": 6.5263392773898445,
  "_indexed": true,
  "_nocasepkg": "zibr",
  "_universes": [
    "pennchopmicrobiomeprogram",
    "ulthran"
  ],
  "_binaries": [
    {
      "r": "4.7.0",
      "os": "linux",
      "version": "1.0.2.9000",
      "date": "2026-10-10T13:45:09.000Z",
      "distro": "resolute",
      "commit": "a8eed5ee045fbcf9c1d45ac2acda0f9fd102f552",
      "fileid": "https://r2.ropensci.org/6289b6da380655162c27601491c54490bcef6efc269e4db984cd61e284eb7903",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/pennchopmicrobiomeprogram/actions/runs/38056556451"
    },
    {
      "r": "4.6.1",
      "os": "linux",
      "version": "1.0.2.9000",
      "date": "2026-10-10T13:45:08.000Z",
      "distro": "resolute",
      "commit": "a8eed5ee045fbcf9c1d45ac2acda0f9fd102f552",
      "fileid": "https://r2.ropensci.org/ed0b2fd0f735d1d9e13b3c94b252063825fe7a928403a804195d5aabd8f834e2",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/pennchopmicrobiomeprogram/actions/runs/38056556451"
    },
    {
      "r": "4.5.3",
      "os": "mac",
      "version": "1.0.2.9000",
      "date": "2026-10-10T13:46:49.000Z",
      "commit": "a8eed5ee045fbcf9c1d45ac2acda0f9fd102f552",
      "fileid": "https://r2.ropensci.org/86d769448a336d0f4b4ff3335dcb5d12bbb8990ed54397e4e8079736cf865df8",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/pennchopmicrobiomeprogram/actions/runs/38056556451"
    },
    {
      "r": "4.6.1",
      "os": "mac",
      "version": "1.0.2.9000",
      "date": "2026-10-10T13:48:27.000Z",
      "commit": "a8eed5ee045fbcf9c1d45ac2acda0f9fd102f552",
      "fileid": "https://r2.ropensci.org/8ebcd46a2d582181566274e09162e49bb5f96c18e6d5fad47959b16156528a5e",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/pennchopmicrobiomeprogram/actions/runs/38056556451"
    },
    {
      "r": "4.6.0",
      "os": "wasm",
      "version": "1.0.2.9000",
      "date": "2026-10-10T13:44:59.000Z",
      "commit": "a8eed5ee045fbcf9c1d45ac2acda0f9fd102f552",
      "fileid": "https://r2.ropensci.org/2b37260c783c85f640f938ea553338ebe08413ec2f838f09c10189d40e4cb8e9",
      "status": "success",
      "buildurl": "https://github.com/r-universe/pennchopmicrobiomeprogram/actions/runs/38056556451"
    },
    {
      "r": "4.7.0",
      "os": "win",
      "version": "1.0.2.9000",
      "date": "2026-10-10T13:44:27.000Z",
      "commit": "a8eed5ee045fbcf9c1d45ac2acda0f9fd102f552",
      "fileid": "https://r2.ropensci.org/9f686c9c24a24d7a28e09af12158bdef76bdc5218c7bc209c4869bf1835ed7ae",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/pennchopmicrobiomeprogram/actions/runs/38056556451"
    },
    {
      "r": "4.5.3",
      "os": "win",
      "version": "1.0.2.9000",
      "date": "2026-10-10T13:44:20.000Z",
      "commit": "a8eed5ee045fbcf9c1d45ac2acda0f9fd102f552",
      "fileid": "https://r2.ropensci.org/7761899cab243ec59f250957e694d4c5a27be53f77d95d008445ea131c000b7d",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/pennchopmicrobiomeprogram/actions/runs/38056556451"
    },
    {
      "r": "4.6.1",
      "os": "win",
      "version": "1.0.2.9000",
      "date": "2026-10-10T13:44:13.000Z",
      "commit": "a8eed5ee045fbcf9c1d45ac2acda0f9fd102f552",
      "fileid": "https://r2.ropensci.org/7758088dd15655b37ebe44986aa09a16c5c64b71a93922f1bafab93d5b945753",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/pennchopmicrobiomeprogram/actions/runs/38056556451"
    }
  ]
}