{
  "_id": "6a1fefe8b401979e73441df3",
  "Package": "flevr",
  "Title": "Flexible, Ensemble-Based Variable Selection with Potentially\nMissing Data",
  "Version": "0.0.5",
  "Authors@R": "person(given = \"Brian D.\",\nfamily = \"Williamson\",\nrole = c(\"aut\", \"cre\"),\nemail = \"brian.d.williamson@kp.org\",\ncomment = c(ORCID = \"0000-0002-7024-548X\"))",
  "Description": "Perform variable selection in settings with possibly\nmissing data based on extrinsic (algorithm-specific) and\nintrinsic (population-level) variable importance. Uses a Super\nLearner ensemble to estimate the underlying prediction\nfunctions that give rise to estimates of variable importance.\nFor more information about the methods, please see Williamson\nand Huang (2024) <doi:10.1515/ijb-2023-0059>.",
  "Encoding": "UTF-8",
  "LazyData": "true",
  "Roxygen": "list(markdown = TRUE)",
  "RoxygenNote": "7.3.2",
  "URL": "https://github.com/bdwilliamson/flevr",
  "BugReports": "https://github.com/bdwilliamson/flevr/issues",
  "VignetteBuilder": "knitr",
  "License": "MIT + file LICENSE",
  "Config/pak/sysreqs": "libicu-dev",
  "Repository": "https://bdwilliamson.r-universe.dev",
  "Date/Publication": "2025-12-05 17:42:39 UTC",
  "RemoteUrl": "https://github.com/bdwilliamson/flevr",
  "RemoteRef": "HEAD",
  "RemoteSha": "9c4fc952ca454d78773ec4263da990369dac82ba",
  "NeedsCompilation": "no",
  "Packaged": {
    "Date": "2026-06-03 09:07:07 UTC",
    "User": "root"
  },
  "Author": "Brian D. Williamson [aut, cre] (ORCID:\n<https://orcid.org/0000-0002-7024-548X>)",
  "Maintainer": "Brian D. Williamson <brian.d.williamson@kp.org>",
  "MD5sum": "c045aeddaea3c0a78d12621eedfb385e",
  "_user": "bdwilliamson",
  "_type": "src",
  "_file": "flevr_0.0.5.tar.gz",
  "_fileid": "68c654be463bc43f1482ca5197b0c4d01bcf8790cb031253b50db9de3f16a8e2",
  "_filesize": 317412,
  "_sha256": "68c654be463bc43f1482ca5197b0c4d01bcf8790cb031253b50db9de3f16a8e2",
  "_created": "2026-06-03T09:07:07.000Z",
  "_published": "2026-06-03T09:12:08.400Z",
  "_distro": "noble",
  "_jobs": [
    {
      "job": 79259588868,
      "time": 181,
      "config": "linux-devel-x86_64",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "7380342370"
    },
    {
      "job": 79259588896,
      "time": 181,
      "config": "linux-release-x86_64",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7380342411"
    },
    {
      "job": 79259588974,
      "time": 213,
      "config": "macos-oldrel-arm64",
      "r": "4.5.3",
      "check": "OK",
      "artifact": "7380356547"
    },
    {
      "job": 79259589069,
      "time": 168,
      "config": "macos-release-arm64",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7380340610"
    },
    {
      "job": 79258769487,
      "time": 283,
      "config": "source",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7380275617"
    },
    {
      "job": 79259589239,
      "time": 138,
      "config": "wasm-release",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7380326516"
    },
    {
      "job": 79259589275,
      "time": 129,
      "config": "windows-devel",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "7380323792"
    },
    {
      "job": 79259589273,
      "time": 112,
      "config": "windows-oldrel",
      "r": "4.5.3",
      "check": "OK",
      "artifact": "7380317517"
    },
    {
      "job": 79259589049,
      "time": 134,
      "config": "windows-release",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7380325337"
    }
  ],
  "_buildurl": "https://github.com/r-universe/bdwilliamson/actions/runs/26874675337",
  "_status": "success",
  "_host": "GitHub-Actions",
  "_upstream": "https://github.com/bdwilliamson/flevr",
  "_commit": {
    "id": "9c4fc952ca454d78773ec4263da990369dac82ba",
    "author": "Brian Williamson <brian.d.williamson@kp.org>",
    "committer": "Brian Williamson <brian.d.williamson@kp.org>",
    "message": "Update xgboost example to fix cran issues\n",
    "time": 1764956559
  },
  "_maintainer": {
    "name": "Brian D. Williamson",
    "email": "brian.d.williamson@kp.org",
    "login": "bdwilliamson",
    "description": "Associate Investigator at Kaiser Permanente Washington Health Research Institute. Interested in inference in high-dimensional settings.",
    "uuid": 13205756,
    "orcid": "0000-0002-7024-548X"
  },
  "_registered": true,
  "_dependencies": [
    {
      "package": "R",
      "version": ">= 3.1.0",
      "role": "Depends"
    },
    {
      "package": "SuperLearner",
      "role": "Imports"
    },
    {
      "package": "dplyr",
      "role": "Imports"
    },
    {
      "package": "magrittr",
      "role": "Imports"
    },
    {
      "package": "tibble",
      "role": "Imports"
    },
    {
      "package": "caret",
      "role": "Imports"
    },
    {
      "package": "mvtnorm",
      "role": "Imports"
    },
    {
      "package": "kernlab",
      "role": "Imports"
    },
    {
      "package": "rlang",
      "role": "Imports"
    },
    {
      "package": "ranger",
      "role": "Imports"
    },
    {
      "package": "vimp",
      "role": "Suggests"
    },
    {
      "package": "stabs",
      "role": "Suggests"
    },
    {
      "package": "testthat",
      "role": "Suggests"
    },
    {
      "package": "knitr",
      "role": "Suggests"
    },
    {
      "package": "rmarkdown",
      "role": "Suggests"
    },
    {
      "package": "mice",
      "role": "Suggests"
    },
    {
      "package": "xgboost",
      "role": "Suggests"
    },
    {
      "package": "glmnet",
      "role": "Suggests"
    },
    {
      "package": "polspline",
      "role": "Suggests"
    }
  ],
  "_owner": "bdwilliamson",
  "_selfowned": true,
  "_usedby": 0,
  "_updates": [
    {
      "week": "2025-48",
      "n": 2
    },
    {
      "week": "2025-49",
      "n": 7
    }
  ],
  "_tags": [
    {
      "name": "v0.0.5",
      "date": "2025-12-05"
    }
  ],
  "_stars": 5,
  "_contributors": [
    {
      "user": "bdwilliamson",
      "count": 100,
      "uuid": 13205756
    }
  ],
  "_userbio": {
    "uuid": 13205756,
    "type": "user",
    "name": "Brian Williamson",
    "description": "Associate Investigator at Kaiser Permanente Washington Health Research Institute. Interested in inference in high-dimensional settings."
  },
  "_downloads": {
    "count": 138,
    "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/flevr"
  },
  "_devurl": "https://github.com/bdwilliamson/flevr",
  "_searchresults": 2,
  "_rbuild": "4.6.0",
  "_assets": [
    "extra/citation.cff",
    "extra/citation.html",
    "extra/citation.json",
    "extra/citation.txt",
    "extra/contents.json",
    "extra/flevr.html",
    "extra/NEWS.html",
    "extra/NEWS.txt",
    "extra/readme.html",
    "extra/readme.md",
    "manual.pdf"
  ],
  "_homeurl": "https://github.com/bdwilliamson/flevr",
  "_realowner": "bdwilliamson",
  "_cranurl": true,
  "_releases": [
    {
      "version": "0.0.4",
      "date": "2023-11-30"
    },
    {
      "version": "0.0.5",
      "date": "2025-12-11"
    }
  ],
  "_exports": [
    "extract_importance_glm",
    "extract_importance_glmnet",
    "extract_importance_mean",
    "extract_importance_polymars",
    "extract_importance_ranger",
    "extract_importance_SL",
    "extract_importance_SL_learner",
    "extract_importance_svm",
    "extract_importance_xgboost",
    "extrinsic_selection",
    "get_augmented_set",
    "get_base_set",
    "intrinsic_control",
    "intrinsic_selection",
    "pool_selected_sets",
    "pool_spvims",
    "SL_stabs_fitfun",
    "SL.ranger.imp",
    "spvim_vcov"
  ],
  "_datasets": [
    {
      "name": "biomarkers",
      "title": "Example biomarker data",
      "object": "biomarkers",
      "class": [
        "tbl_df",
        "tbl",
        "data.frame"
      ],
      "fields": [
        "institution",
        "mucinous",
        "high_malignancy",
        "lab1_actb",
        "lab1_molecules_score",
        "lab1_telomerase_score",
        "lab2_fluorescence_score",
        "lab3_muc3ac_score",
        "lab3_muc5ac_score",
        "lab4_areg_score",
        "lab4_glucose_score",
        "lab5_mucinous_call",
        "lab5_neoplasia_v1_call",
        "lab5_neoplasia_v2_call",
        "lab6_ab_score",
        "cea",
        "lab1_molecules_neoplasia_call",
        "lab1_telomerase_neoplasia_call",
        "lab2_fluorescence_mucinous_call",
        "lab4_areg_mucinous_call",
        "lab4_glucose_mucinous_call",
        "lab4_combined_mucinous_call",
        "lab6_ab_neoplasia_call",
        "cea_call"
      ],
      "rows": 306,
      "table": true,
      "tojson": true
    }
  ],
  "_help": [
    {
      "page": "biomarkers",
      "title": "Example biomarker data",
      "topics": [
        "biomarkers"
      ]
    },
    {
      "page": "extract_importance_glm",
      "title": "Extract the learner-specific importance from a glm object",
      "topics": [
        "extract_importance_glm"
      ]
    },
    {
      "page": "extract_importance_glmnet",
      "title": "Extract the learner-specific importance from a glmnet object",
      "topics": [
        "extract_importance_glmnet"
      ]
    },
    {
      "page": "extract_importance_mean",
      "title": "Extract the learner-specific importance from a mean object",
      "topics": [
        "extract_importance_mean"
      ]
    },
    {
      "page": "extract_importance_polymars",
      "title": "Extract the learner-specific importance from a polymars object",
      "topics": [
        "extract_importance_polymars"
      ]
    },
    {
      "page": "extract_importance_ranger",
      "title": "Extract the learner-specific importance from a ranger object",
      "topics": [
        "extract_importance_ranger"
      ]
    },
    {
      "page": "extract_importance_SL",
      "title": "Extract extrinsic importance from a Super Learner object",
      "topics": [
        "extract_importance_SL"
      ]
    },
    {
      "page": "extract_importance_SL_learner",
      "title": "Extract the learner-specific importance from a fitted SuperLearner algorithm",
      "topics": [
        "extract_importance_SL_learner"
      ]
    },
    {
      "page": "extract_importance_svm",
      "title": "Extract the learner-specific importance from an svm object",
      "topics": [
        "extract_importance_svm"
      ]
    },
    {
      "page": "extract_importance_xgboost",
      "title": "Extract the learner-specific importance from an xgboost object",
      "topics": [
        "extract_importance_xgboost"
      ]
    },
    {
      "page": "extrinsic_selection",
      "title": "Perform extrinsic, ensemble-based variable selection",
      "topics": [
        "extrinsic_selection"
      ]
    },
    {
      "page": "get_augmented_set",
      "title": "Get an augmented set based on the next-most significant variables",
      "topics": [
        "get_augmented_set"
      ]
    },
    {
      "page": "get_base_set",
      "title": "Get an initial selected set based on intrinsic importance and a base method",
      "topics": [
        "get_base_set"
      ]
    },
    {
      "page": "intrinsic_control",
      "title": "Control parameters for intrinsic variable selection",
      "topics": [
        "intrinsic_control"
      ]
    },
    {
      "page": "intrinsic_selection",
      "title": "Perform intrinsic, ensemble-based variable selection",
      "topics": [
        "intrinsic_selection"
      ]
    },
    {
      "page": "pool_selected_sets",
      "title": "Pool selected sets from multiply-imputed data",
      "topics": [
        "pool_selected_sets"
      ]
    },
    {
      "page": "pool_spvims",
      "title": "Pool SPVIM Estimates Using Rubin's Rules",
      "topics": [
        "pool_spvims"
      ]
    },
    {
      "page": "SL_stabs_fitfun",
      "title": "Wrapper for using Super Learner-based extrinsic selection within stability selection",
      "topics": [
        "SL_stabs_fitfun"
      ]
    },
    {
      "page": "SL.ranger.imp",
      "title": "Super Learner wrapper for a ranger object with variable importance",
      "topics": [
        "SL.ranger.imp"
      ]
    },
    {
      "page": "spvim_vcov",
      "title": "Extract a Variance-Covariance Matrix for SPVIM Estimates",
      "topics": [
        "spvim_vcov"
      ]
    }
  ],
  "_readme": "https://github.com/bdwilliamson/flevr/raw/HEAD/README.md",
  "_rundeps": [
    "bitops",
    "caret",
    "caTools",
    "class",
    "cli",
    "clock",
    "codetools",
    "cpp11",
    "cvAUC",
    "data.table",
    "diagram",
    "digest",
    "dplyr",
    "e1071",
    "farver",
    "foreach",
    "future",
    "future.apply",
    "gam",
    "generics",
    "ggplot2",
    "globals",
    "glue",
    "gower",
    "gplots",
    "gtable",
    "gtools",
    "hardhat",
    "ipred",
    "isoband",
    "iterators",
    "kernlab",
    "KernSmooth",
    "labeling",
    "lattice",
    "lava",
    "lifecycle",
    "listenv",
    "lubridate",
    "magrittr",
    "MASS",
    "Matrix",
    "ModelMetrics",
    "mvtnorm",
    "nlme",
    "nnet",
    "nnls",
    "numDeriv",
    "parallelly",
    "pillar",
    "pkgconfig",
    "plyr",
    "pROC",
    "prodlim",
    "progressr",
    "proxy",
    "purrr",
    "R6",
    "ranger",
    "RColorBrewer",
    "Rcpp",
    "RcppEigen",
    "recipes",
    "reshape2",
    "rlang",
    "ROCR",
    "rpart",
    "S7",
    "scales",
    "shape",
    "sparsevctrs",
    "SQUAREM",
    "stringi",
    "stringr",
    "SuperLearner",
    "survival",
    "tibble",
    "tidyr",
    "tidyselect",
    "timechange",
    "timeDate",
    "tzdb",
    "utf8",
    "vctrs",
    "viridisLite",
    "withr"
  ],
  "_vignettes": [
    {
      "source": "extrinsic_selection.Rmd",
      "filename": "extrinsic_selection.html",
      "title": "Extrinsic variable selection",
      "engine": "knitr::rmarkdown",
      "headings": [
        "Introduction",
        "Extrinsic variable selection",
        "Extrinsic selection with missing data"
      ],
      "created": "2021-06-16 23:39:05",
      "modified": "2023-11-23 00:23:37",
      "commits": 8
    },
    {
      "source": "intrinsic_selection.Rmd",
      "filename": "intrinsic_selection.html",
      "title": "Intrinsic variable selection",
      "engine": "knitr::rmarkdown",
      "headings": [
        "Introduction",
        "Intrinsic variable selection",
        "Intrinsic selection with missing data"
      ],
      "created": "2021-06-16 23:39:05",
      "modified": "2023-11-22 18:34:05",
      "commits": 5
    },
    {
      "source": "introduction_to_flevr.Rmd",
      "filename": "introduction_to_flevr.html",
      "title": "Introduction to flevr",
      "author": "Brian D. Williamson",
      "engine": "knitr::rmarkdown",
      "headings": [
        "Introduction",
        "Installation",
        "Quick start",
        "Extrinsic variable selection",
        "Intrinsic variable selection"
      ],
      "created": "2021-06-16 23:39:05",
      "modified": "2021-06-16 23:39:05",
      "commits": 1
    }
  ],
  "_score": 5.176091259055681,
  "_indexed": true,
  "_nocasepkg": "flevr",
  "_universes": [
    "bdwilliamson"
  ],
  "_binaries": [
    {
      "r": "4.7.0",
      "os": "linux",
      "version": "0.0.5",
      "date": "2026-06-03T09:09:53.000Z",
      "distro": "noble",
      "commit": "9c4fc952ca454d78773ec4263da990369dac82ba",
      "fileid": "2cd86da0e218210547c290c9a6462a68f5cfb0e8023fb88976781a6ddada2ee1",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bdwilliamson/actions/runs/26874675337"
    },
    {
      "r": "4.6.0",
      "os": "linux",
      "version": "0.0.5",
      "date": "2026-06-03T09:09:53.000Z",
      "distro": "noble",
      "commit": "9c4fc952ca454d78773ec4263da990369dac82ba",
      "fileid": "afe4b41fa212ef65bc8344c50f4018a9dca4d3ecb8aa239d623d24e6d87c2183",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bdwilliamson/actions/runs/26874675337"
    },
    {
      "r": "4.5.3",
      "os": "mac",
      "version": "0.0.5",
      "date": "2026-06-03T09:10:33.000Z",
      "commit": "9c4fc952ca454d78773ec4263da990369dac82ba",
      "fileid": "8f516b901f5be66ee6713ac0d9789dc00bb8eda99302c02abc58020e6679c2fc",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bdwilliamson/actions/runs/26874675337"
    },
    {
      "r": "4.6.0",
      "os": "mac",
      "version": "0.0.5",
      "date": "2026-06-03T09:10:00.000Z",
      "commit": "9c4fc952ca454d78773ec4263da990369dac82ba",
      "fileid": "227b95223254b8c5ead86525f528ac4196f2db2d50c46fed7f797768bf938fc7",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bdwilliamson/actions/runs/26874675337"
    },
    {
      "r": "4.6.0",
      "os": "wasm",
      "version": "0.0.5",
      "date": "2026-06-03T09:09:51.000Z",
      "commit": "9c4fc952ca454d78773ec4263da990369dac82ba",
      "fileid": "64b638660b28a01c3aecbd604452f06b6042f84bc0901c3417ddbf3a0e2bad67",
      "status": "success",
      "buildurl": "https://github.com/r-universe/bdwilliamson/actions/runs/26874675337"
    },
    {
      "r": "4.7.0",
      "os": "win",
      "version": "0.0.5",
      "date": "2026-06-03T09:08:56.000Z",
      "commit": "9c4fc952ca454d78773ec4263da990369dac82ba",
      "fileid": "33dc6233460218c6612b171ae854b3f52da50e48c29639116e8276281309b076",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bdwilliamson/actions/runs/26874675337"
    },
    {
      "r": "4.5.3",
      "os": "win",
      "version": "0.0.5",
      "date": "2026-06-03T09:08:36.000Z",
      "commit": "9c4fc952ca454d78773ec4263da990369dac82ba",
      "fileid": "92d836235a634b123f0eeeb796ed1bfe4a4bbfb01497966ea355e54cf8495608",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bdwilliamson/actions/runs/26874675337"
    },
    {
      "r": "4.6.0",
      "os": "win",
      "version": "0.0.5",
      "date": "2026-06-03T09:08:59.000Z",
      "commit": "9c4fc952ca454d78773ec4263da990369dac82ba",
      "fileid": "80581910155b1e611ba0730022f73cd16f6bd625df3923752c3540145bd55a41",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bdwilliamson/actions/runs/26874675337"
    }
  ]
}