{
  "_id": "6a10193cacfb0bcc41c85dba",
  "Encoding": "UTF-8",
  "Package": "gemR",
  "Type": "Package",
  "Title": "General Effect Modelling",
  "Version": "1.2.2",
  "Date": "2025-09-04",
  "Authors@R": "c(person(\"Kristian Hovde\", \"Liland\", role = c(\"aut\", \"cre\"),\nemail = \"kristian.liland@nmbu.no\"),\nperson(\"Ellen Færgestad\", \"Mosleth\", role = \"ctb\"))",
  "Description": "Two-step modeling with separation of sources of variation\nthrough analysis of variance and subsequent multivariate\nmodeling through a range of unsupervised and supervised\nstatistical methods. Separation can focus on removal of\ninterfering effects or isolation of effects of interest. EF\nMosleth et al. (2021) <doi:10.1038/s41598-021-82388-w> and EF\nMosleth et al. (2020) <doi:10.1016/B978-0-12-409547-2.14882-6>.",
  "License": "GPL",
  "LazyData": "TRUE",
  "RoxygenNote": "7.3.2",
  "Config/pak/sysreqs": "cmake make libicu-dev",
  "Repository": "https://khliland.r-universe.dev",
  "Date/Publication": "2025-09-05 12:42:40 UTC",
  "RemoteUrl": "https://github.com/khliland/gemr",
  "RemoteRef": "HEAD",
  "RemoteSha": "e3ba228e5c6a4747f25bdccd151a4ef30f6f5719",
  "NeedsCompilation": "no",
  "Packaged": {
    "Date": "2026-05-22 08:48:31 UTC",
    "User": "root"
  },
  "Author": "Kristian Hovde Liland [aut, cre],\nEllen Færgestad Mosleth [ctb]",
  "Maintainer": "Kristian Hovde Liland <kristian.liland@nmbu.no>",
  "MD5sum": "56cd466877880a4999064bb336a1773d",
  "_user": "khliland",
  "_type": "src",
  "_file": "gemR_1.2.2.tar.gz",
  "_fileid": "0e878932828526bcdc6b0df1a9e30ace2d9b9bfba2fa789887950e121645a1ca",
  "_filesize": 2218039,
  "_sha256": "0e878932828526bcdc6b0df1a9e30ace2d9b9bfba2fa789887950e121645a1ca",
  "_created": "2026-05-22T08:48:31.000Z",
  "_published": "2026-05-22T08:52:12.598Z",
  "_distro": "noble",
  "_jobs": [
    {
      "job": 77347055107,
      "time": 144,
      "config": "linux-devel-x86_64",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "7156567122"
    },
    {
      "job": 77347055197,
      "time": 171,
      "config": "linux-release-x86_64",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7156575701"
    },
    {
      "job": 77347055053,
      "time": 110,
      "config": "macos-oldrel-arm64",
      "r": "4.5.3",
      "check": "OK",
      "artifact": "7156556709"
    },
    {
      "job": 77347055070,
      "time": 142,
      "config": "macos-release-arm64",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7156566817"
    },
    {
      "job": 77346525827,
      "time": 209,
      "config": "source",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7156522985"
    },
    {
      "job": 77347055099,
      "time": 127,
      "config": "wasm-release",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7156561658"
    },
    {
      "job": 77347055064,
      "time": 139,
      "config": "windows-devel",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "7156566073"
    },
    {
      "job": 77347055131,
      "time": 135,
      "config": "windows-oldrel",
      "r": "4.5.3",
      "check": "OK",
      "artifact": "7156565373"
    },
    {
      "job": 77347055128,
      "time": 139,
      "config": "windows-release",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7156566480"
    }
  ],
  "_buildurl": "https://github.com/r-universe/khliland/actions/runs/26277868937",
  "_status": "success",
  "_host": "GitHub-Actions",
  "_upstream": "https://github.com/khliland/gemr",
  "_commit": {
    "id": "e3ba228e5c6a4747f25bdccd151a4ef30f6f5719",
    "author": "Kristian Hovde Liland <khliland@users.noreply.github.com>",
    "committer": "Kristian Hovde Liland <khliland@users.noreply.github.com>",
    "message": "gemR 1.2.2\n",
    "time": 1757076160
  },
  "_maintainer": {
    "name": "Kristian Hovde Liland",
    "email": "kristian.liland@nmbu.no",
    "login": "khliland",
    "description": "",
    "uuid": 9257806
  },
  "_registered": true,
  "_dependencies": [
    {
      "package": "R",
      "version": ">= 3.5.0",
      "role": "Depends"
    },
    {
      "package": "ggplot2",
      "role": "Imports"
    },
    {
      "package": "scales",
      "role": "Imports"
    },
    {
      "package": "gridExtra",
      "role": "Imports"
    },
    {
      "package": "mixlm",
      "role": "Imports"
    },
    {
      "package": "pls",
      "role": "Imports"
    },
    {
      "package": "plsVarSel",
      "role": "Imports"
    },
    {
      "package": "HDANOVA",
      "version": ">= 0.8.4",
      "role": "Imports"
    },
    {
      "package": "lme4",
      "role": "Imports"
    },
    {
      "package": "pracma",
      "role": "Imports"
    },
    {
      "package": "glmnet",
      "role": "Suggests"
    },
    {
      "package": "neuralnet",
      "role": "Suggests"
    }
  ],
  "_owner": "khliland",
  "_selfowned": true,
  "_usedby": 0,
  "_updates": [
    {
      "week": "2025-25",
      "n": 1
    },
    {
      "week": "2025-26",
      "n": 3
    },
    {
      "week": "2025-36",
      "n": 1
    }
  ],
  "_tags": [],
  "_stars": 0,
  "_contributors": [
    {
      "user": "khliland",
      "count": 18,
      "uuid": 9257806
    }
  ],
  "_userbio": {
    "uuid": 9257806,
    "type": "user",
    "name": "Kristian Hovde Liland"
  },
  "_downloads": {
    "count": 527,
    "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/gemR"
  },
  "_devurl": "https://github.com/khliland/gemr",
  "_searchresults": 3,
  "_rbuild": "4.6.0",
  "_assets": [
    "extra/citation.cff",
    "extra/citation.html",
    "extra/citation.json",
    "extra/citation.txt",
    "extra/contents.json",
    "extra/gemR.html",
    "extra/NEWS.html",
    "extra/NEWS.txt",
    "extra/readme.html",
    "extra/readme.md",
    "manual.pdf"
  ],
  "_homeurl": "https://github.com/khliland/gemr",
  "_realowner": "khliland",
  "_cranurl": true,
  "_releases": [
    {
      "version": "1.2.1",
      "date": "2025-06-27"
    },
    {
      "version": "1.2.2",
      "date": "2025-09-04"
    }
  ],
  "_exports": [
    "confints",
    "corrplot",
    "elastic",
    "explvar",
    "GEM",
    "grid.arrange",
    "knock.in",
    "knock.out",
    "loadingplot",
    "loadings",
    "mvrValstats",
    "neuralnet",
    "pca",
    "permutation",
    "pls",
    "R2",
    "sca",
    "scoreplot",
    "scores",
    "tableGEM"
  ],
  "_datasets": [
    {
      "name": "Diabetes",
      "title": "Diabetes data",
      "object": "Diabetes",
      "class": [
        "data.frame"
      ],
      "fields": [
        "surgery",
        "T2D",
        "transcriptome",
        "meta"
      ],
      "rows": 30,
      "table": false,
      "tojson": true
    },
    {
      "name": "Lactobacillus",
      "title": "Lactobacillus data",
      "object": "Lactobacillus",
      "class": [
        "data.frame"
      ],
      "fields": [
        "strain",
        "growthrate",
        "proteome",
        "transcriptome",
        "phenome"
      ],
      "rows": 12,
      "table": false,
      "tojson": true
    },
    {
      "name": "MS",
      "title": "Multiple Sclerosis data",
      "object": "MS",
      "class": [
        "data.frame"
      ],
      "fields": [
        "MS",
        "group",
        "sex",
        "age",
        "proteins"
      ],
      "rows": 101,
      "table": false,
      "tojson": true
    }
  ],
  "_help": [
    {
      "page": "confints",
      "title": "Confidence Intervals of Effect Differences",
      "topics": [
        "confints",
        "confints.default",
        "confints.GEM",
        "plot.confints"
      ]
    },
    {
      "page": "Diabetes",
      "title": "Diabetes data",
      "topics": [
        "Diabetes"
      ]
    },
    {
      "page": "elastic",
      "title": "Elastic-net modeling of GEM objects.",
      "topics": [
        "coef.GEMglmnet",
        "elastic",
        "elastic.GEM"
      ]
    },
    {
      "page": "GEM",
      "title": "General Effect Modelling",
      "topics": [
        "GEM",
        "gemR",
        "plot.GEM",
        "print.GEM",
        "print.summary.GEM",
        "summary.GEM",
        "tableGEM"
      ]
    },
    {
      "page": "knock.in",
      "title": "Knock-in and knock-out of effect(s)",
      "topics": [
        "knock.in",
        "knock.out"
      ]
    },
    {
      "page": "Lactobacillus",
      "title": "Lactobacillus data",
      "topics": [
        "Lactobacillus"
      ]
    },
    {
      "page": "MS",
      "title": "Multiple Sclerosis data",
      "topics": [
        "MS"
      ]
    },
    {
      "page": "neuralnet",
      "title": "Neural Network by Multilayer Perceptron",
      "topics": [
        "neuralnet"
      ]
    },
    {
      "page": "pca",
      "title": "Principal Component Analysis",
      "topics": [
        "pca"
      ]
    },
    {
      "page": "plot.GEMpls",
      "title": "Plot function and extraction method for GEM-based PLS",
      "topics": [
        "corrplot",
        "explvar",
        "explvar.GEMpls",
        "loadingplot",
        "loadings",
        "mvrValstats",
        "plot.GEM.pls",
        "plot.GEMpls",
        "print.GEMpls",
        "R2",
        "scoreplot",
        "scores",
        "summary.GEMpls"
      ]
    },
    {
      "page": "pls.GEM",
      "title": "Partial Least Squares modelling of GEM objects.",
      "topics": [
        "pls.GEM"
      ]
    },
    {
      "page": "sca",
      "title": "Simultaneous Component Analysis",
      "topics": [
        "sca"
      ]
    }
  ],
  "_readme": "https://github.com/khliland/gemr/raw/HEAD/README.md",
  "_rundeps": [
    "abind",
    "backports",
    "bdsmatrix",
    "boot",
    "broom",
    "car",
    "carData",
    "cli",
    "codetools",
    "colorspace",
    "cowplot",
    "cpp11",
    "crayon",
    "Deriv",
    "doBy",
    "dplyr",
    "farver",
    "forecast",
    "Formula",
    "fracdiff",
    "genalg",
    "generics",
    "ggplot2",
    "glue",
    "gridExtra",
    "gtable",
    "HDANOVA",
    "hms",
    "isoband",
    "labeling",
    "lattice",
    "leaps",
    "lifecycle",
    "lme4",
    "lmtest",
    "magrittr",
    "MASS",
    "Matrix",
    "MatrixModels",
    "mgcv",
    "microbenchmark",
    "minqa",
    "mixlm",
    "modelr",
    "multcomp",
    "mvtnorm",
    "nlme",
    "nloptr",
    "nnet",
    "numDeriv",
    "pbkrtest",
    "pillar",
    "pkgconfig",
    "pls",
    "plsVarSel",
    "pracma",
    "praznik",
    "prettyunits",
    "progress",
    "purrr",
    "quantreg",
    "R6",
    "rbibutils",
    "RColorBrewer",
    "Rcpp",
    "RcppArmadillo",
    "RcppEigen",
    "Rdpack",
    "reformulas",
    "rlang",
    "RSpectra",
    "S7",
    "sandwich",
    "scales",
    "SparseM",
    "stringi",
    "stringr",
    "survival",
    "TH.data",
    "tibble",
    "tidyr",
    "tidyselect",
    "timeDate",
    "urca",
    "utf8",
    "vctrs",
    "viridisLite",
    "withr",
    "zoo"
  ],
  "_score": 3.1760912590556813,
  "_indexed": true,
  "_nocasepkg": "gemr",
  "_universes": [
    "khliland"
  ],
  "_binaries": [
    {
      "r": "4.7.0",
      "os": "linux",
      "version": "1.2.2",
      "date": "2026-05-22T08:50:42.000Z",
      "distro": "noble",
      "commit": "e3ba228e5c6a4747f25bdccd151a4ef30f6f5719",
      "fileid": "ef6fb196d6f2dbd2ab9d83fcf306bbd278b90b1ec1097ea86c6789a0a221117c",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/khliland/actions/runs/26277868937"
    },
    {
      "r": "4.6.0",
      "os": "linux",
      "version": "1.2.2",
      "date": "2026-05-22T08:51:03.000Z",
      "distro": "noble",
      "commit": "e3ba228e5c6a4747f25bdccd151a4ef30f6f5719",
      "fileid": "4969be48d30c9b4a6ba8011761a883f631aaf3c1bb4f4aa899d68739e9f311a0",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/khliland/actions/runs/26277868937"
    },
    {
      "r": "4.5.3",
      "os": "mac",
      "version": "1.2.2",
      "date": "2026-05-22T08:50:11.000Z",
      "commit": "e3ba228e5c6a4747f25bdccd151a4ef30f6f5719",
      "fileid": "5d0222184533e1c78fce484d1220c9caa814336efe696325e43a2e78fd6344ea",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/khliland/actions/runs/26277868937"
    },
    {
      "r": "4.6.0",
      "os": "mac",
      "version": "1.2.2",
      "date": "2026-05-22T08:50:36.000Z",
      "commit": "e3ba228e5c6a4747f25bdccd151a4ef30f6f5719",
      "fileid": "d52112987107c164a010c22b5c60a5299df0e5b7a310a05d0bf68d5a9c9ade61",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/khliland/actions/runs/26277868937"
    },
    {
      "r": "4.6.0",
      "os": "wasm",
      "version": "1.2.2",
      "date": "2026-05-22T08:50:59.000Z",
      "commit": "e3ba228e5c6a4747f25bdccd151a4ef30f6f5719",
      "fileid": "24cbaf14cd3f6ddd9347a24eba454d9e1684a315682175f11c1744281c09844a",
      "status": "success",
      "buildurl": "https://github.com/r-universe/khliland/actions/runs/26277868937"
    },
    {
      "r": "4.7.0",
      "os": "win",
      "version": "1.2.2",
      "date": "2026-05-22T08:50:10.000Z",
      "commit": "e3ba228e5c6a4747f25bdccd151a4ef30f6f5719",
      "fileid": "597c7d3dcd14ed07d8440d4f2469e713745a38c2df3a12490dbc28bef17ce523",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/khliland/actions/runs/26277868937"
    },
    {
      "r": "4.5.3",
      "os": "win",
      "version": "1.2.2",
      "date": "2026-05-22T08:50:15.000Z",
      "commit": "e3ba228e5c6a4747f25bdccd151a4ef30f6f5719",
      "fileid": "8e79a79a4635678fbe6ebf61b598435736bb3d6bb992ca79b59571f5fa23fa13",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/khliland/actions/runs/26277868937"
    },
    {
      "r": "4.6.0",
      "os": "win",
      "version": "1.2.2",
      "date": "2026-05-22T08:50:18.000Z",
      "commit": "e3ba228e5c6a4747f25bdccd151a4ef30f6f5719",
      "fileid": "2e1b20d7633150db5989bc961fee0e4406ecbd2b482ce64b96a8578f74a4bff7",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/khliland/actions/runs/26277868937"
    }
  ]
}