{
  "_id": "6addf317eef27ed744a9fb04",
  "Package": "PheValuator",
  "Type": "Package",
  "Title": "Rapid Phenotype Evaluation",
  "Version": "2.2.17",
  "Author": "Joel N. Swerdel",
  "Maintainer": "Joel N. Swerdel <jswerdel@its.jnj.com>",
  "Description": "A package for evaluating phenotype algorithms.  The\npackage develops a diagnostic prediction model using a set of\nnoisy positives and noisy negatives.  It can then apply the\nmodel to a large cohort to create a set of subjects each with a\npredicted probability for the health outcome of interest.  This\ncohort can then be used to evaluate phenotype algorithms\nthrough the calculation of the necessary performance\ncharacteristics - sensitivity, specificity, and positive and\nnegative preditive value.",
  "License": "Apache License 2.0",
  "VignetteBuilder": "knitr",
  "Remotes": [
    "ohdsi/PatientLevelPrediction",
    "ohdsi/FeatureExtraction",
    "ohdsi/ROhdsiWebApi",
    "ohdsi/Eunomia",
    "ohdsi/CohortGenerator"
  ],
  "URL": "https://ohdsi.github.io/PheValuator,\nhttps://github.com/OHDSI/PheValuator",
  "BugReports": "https://github.com/OHDSI/PheValuator/issues",
  "Encoding": "UTF-8",
  "Config/roxygen2/version": "8.0.0",
  "Config/pak/sysreqs": "make default-jdk libicu-dev libxml2-dev libx11-dev",
  "Repository": "https://ohdsi.r-universe.dev",
  "Date/Publication": "2026-06-03 13:12:00 UTC",
  "RemoteUrl": "https://github.com/ohdsi/phevaluator",
  "RemoteRef": "HEAD",
  "RemoteSha": "81cdb797d19a6fc4deda7ce60737d0d8a29ec7a0",
  "NeedsCompilation": "no",
  "Packaged": {
    "Date": "2026-10-25 11:58:52 UTC",
    "User": "root"
  },
  "_user": "ohdsi",
  "_type": "src",
  "_file": "PheValuator_2.2.17.tar.gz",
  "_fileid": "https://r2.ropensci.org/b58a4d2bc2398879349f4fbfec2d45916875e65c2107a1512978eb58dc03e963",
  "_filesize": 541078,
  "_sha256": "b58a4d2bc2398879349f4fbfec2d45916875e65c2107a1512978eb58dc03e963",
  "_expires": "2027-02-02T12:16:21.000Z",
  "_created": "2026-10-25T11:58:52.000Z",
  "_published": "2026-10-25T12:16:23.163Z",
  "_upstream": "https://github.com/ohdsi/phevaluator",
  "_status": "success",
  "_maintainer": {
    "name": "Joel N. Swerdel",
    "email": "jswerdel@its.jnj.com",
    "login": "jswerdel",
    "description": "",
    "uuid": 19151846
  },
  "_jobs": [
    {
      "job": 121162232920,
      "time": 197,
      "config": "linux-devel-x86_64",
      "r": "4.7.0",
      "check": "WARNING",
      "artifact": "12598172127"
    },
    {
      "job": 121162232879,
      "time": 205,
      "config": "linux-release-x86_64",
      "r": "4.6.1",
      "check": "WARNING",
      "artifact": "12598400812"
    },
    {
      "job": 121162232872,
      "time": 140,
      "config": "macos-oldrel-arm64",
      "r": "4.5.3",
      "check": "WARNING",
      "artifact": "12598701511"
    },
    {
      "job": 121162232923,
      "time": 132,
      "config": "macos-release-arm64",
      "r": "4.6.1",
      "check": "WARNING",
      "artifact": "12598516904"
    },
    {
      "job": 121160663597,
      "time": 454,
      "config": "source",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "12597907233"
    },
    {
      "job": 121162232912,
      "time": 143,
      "config": "wasm-release",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "12598296775"
    },
    {
      "job": 121162232901,
      "time": 169,
      "config": "windows-devel-x86_64",
      "r": "4.7.0",
      "check": "WARNING",
      "artifact": "12597907570"
    },
    {
      "job": 121162232890,
      "time": 122,
      "config": "windows-oldrel-x86_64",
      "r": "4.5.3",
      "check": "WARNING",
      "artifact": "12597802419"
    },
    {
      "job": 121162232927,
      "time": 182,
      "config": "windows-release-x86_64",
      "r": "4.6.1",
      "check": "WARNING",
      "artifact": "12598591216"
    }
  ],
  "_buildurl": "https://github.com/r-universe/ohdsi/actions/runs/40190611831",
  "_commit": {
    "id": "81cdb797d19a6fc4deda7ce60737d0d8a29ec7a0",
    "author": "Joel Swerdel <jswerdel@its.jnj.com>",
    "committer": "Joel Swerdel <jswerdel@its.jnj.com>",
    "message": " - bug fix for results output\n",
    "time": 1780492320
  },
  "_distro": "resolute",
  "_host": "GitHub-Actions",
  "_registered": true,
  "_dependencies": [
    {
      "package": "R",
      "version": ">= 3.2.2",
      "role": "Depends"
    },
    {
      "package": "DatabaseConnector",
      "role": "Depends"
    },
    {
      "package": "PatientLevelPrediction",
      "version": ">= 6.0.4",
      "role": "Depends"
    },
    {
      "package": "FeatureExtraction",
      "version": ">= 2.1.5",
      "role": "Depends"
    },
    {
      "package": "SqlRender",
      "version": ">= 1.5.2",
      "role": "Imports"
    },
    {
      "package": "dplyr",
      "version": ">= 0.7.8",
      "role": "Imports"
    },
    {
      "package": "methods",
      "role": "Imports"
    },
    {
      "package": "ParallelLogger",
      "role": "Imports"
    },
    {
      "package": "tibble",
      "role": "Imports"
    },
    {
      "package": "knitr",
      "role": "Suggests"
    },
    {
      "package": "rmarkdown",
      "role": "Suggests"
    },
    {
      "package": "ROhdsiWebApi",
      "role": "Suggests"
    },
    {
      "package": "shiny",
      "role": "Suggests"
    },
    {
      "package": "shinydashboard",
      "role": "Suggests"
    },
    {
      "package": "DT",
      "role": "Suggests"
    },
    {
      "package": "htmltools",
      "role": "Suggests"
    },
    {
      "package": "qpdf",
      "role": "Suggests"
    },
    {
      "package": "testthat",
      "role": "Suggests"
    },
    {
      "package": "Eunomia",
      "role": "Suggests"
    },
    {
      "package": "CohortGenerator",
      "role": "Suggests"
    },
    {
      "package": "withr",
      "role": "Suggests"
    }
  ],
  "_owner": "ohdsi",
  "_selfowned": true,
  "_usedby": 0,
  "_updates": [
    {
      "week": "2025-47",
      "n": 2
    },
    {
      "week": "2026-23",
      "n": 6
    }
  ],
  "_tags": [
    {
      "name": "v2.2.16",
      "date": "2025-11-20"
    },
    {
      "name": "v2.2.17",
      "date": "2026-06-03"
    }
  ],
  "_stars": 22,
  "_contributors": [
    {
      "user": "jswerdel",
      "count": 349,
      "uuid": 19151846
    },
    {
      "user": "schuemie",
      "count": 32,
      "uuid": 6713328
    }
  ],
  "_userbio": {
    "uuid": 6570077,
    "type": "organization",
    "name": "Observational Health Data Sciences and Informatics",
    "followers": 1139
  },
  "_downloads": {
    "count": 0,
    "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/PheValuator"
  },
  "_devurl": "https://github.com/ohdsi/phevaluator",
  "_pkgdown": "https://ohdsi.github.io/PheValuator",
  "_searchresults": 19,
  "_topics": [
    "openjdk"
  ],
  "_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/PheValuator.html",
    "extra/readme.html",
    "extra/readme.md"
  ],
  "_homeurl": "https://github.com/ohdsi/phevaluator",
  "_realowner": "ohdsi",
  "_cranurl": true,
  "_releases": [
    {
      "version": "2.2.18",
      "date": "2026-10-24"
    }
  ],
  "_exports": [
    "computePerformanceMetricsFromCounts",
    "createCreateEvaluationCohortArgs",
    "createDefaultCovariateSettings",
    "createEvaluationCohort",
    "createPheValuatorAnalysis",
    "createTestPhenotypeAlgorithmArgs",
    "loadPheValuatorAnalysisList",
    "runPheValuatorAnalyses",
    "savePheValuatorAnalysisList",
    "summarizePheValuatorAnalyses",
    "testPhenotypeAlgorithm"
  ],
  "_help": [
    {
      "page": "computePerformanceMetricsFromCounts",
      "title": "Compute performance metrics based on a 2-by-2 counts table",
      "topics": [
        "computePerformanceMetricsFromCounts"
      ]
    },
    {
      "page": "createCreateEvaluationCohortArgs",
      "title": "Create a parameter object for the function createEvaluationCohort",
      "topics": [
        "createCreateEvaluationCohortArgs"
      ]
    },
    {
      "page": "createDefaultCovariateSettings",
      "title": "Create the default covariate settings",
      "topics": [
        "createDefaultCovariateSettings"
      ]
    },
    {
      "page": "createEvaluationCohort",
      "title": "Create the evaluation cohort",
      "topics": [
        "createEvaluationCohort"
      ]
    },
    {
      "page": "createPhevaluatorAnalysis",
      "title": "Create a PheValuator analysis specification",
      "topics": [
        "createPheValuatorAnalysis"
      ]
    },
    {
      "page": "createTestPhenotypeAlgorithmArgs",
      "title": "Create a parameter object for the function testPhenotypeAlgorithm",
      "topics": [
        "createTestPhenotypeAlgorithmArgs"
      ]
    },
    {
      "page": "loadPhevaluatorAnalysisList",
      "title": "Load a list of phevaluatorAnalysis from file",
      "topics": [
        "loadPheValuatorAnalysisList"
      ]
    },
    {
      "page": "runPheValuatorAnalyses",
      "title": "Run a list of analyses",
      "topics": [
        "runPheValuatorAnalyses"
      ]
    },
    {
      "page": "savePhevaluatorAnalysisList",
      "title": "Save a list of phevaluatorAnalysis to file",
      "topics": [
        "savePheValuatorAnalysisList"
      ]
    },
    {
      "page": "summarizePheValuatorAnalyses",
      "title": "Summarize results of PheValuator analyses",
      "topics": [
        "summarizePheValuatorAnalyses"
      ]
    },
    {
      "page": "testPhenotypeAlgorithm",
      "title": "Test phenotype algorithms",
      "topics": [
        "testPhenotypeAlgorithm"
      ]
    }
  ],
  "_readme": "https://github.com/ohdsi/phevaluator/raw/HEAD/README.md",
  "_rundeps": [
    "Andromeda",
    "backports",
    "bit",
    "bit64",
    "blob",
    "cachem",
    "checkmate",
    "cli",
    "clipr",
    "cpp11",
    "crayon",
    "Cyclops",
    "DatabaseConnector",
    "DBI",
    "dbplyr",
    "digest",
    "dplyr",
    "duckdb",
    "fastmap",
    "FeatureExtraction",
    "generics",
    "glue",
    "hms",
    "jsonlite",
    "lattice",
    "lifecycle",
    "magrittr",
    "Matrix",
    "memoise",
    "memuse",
    "ParallelLogger",
    "PatientLevelPrediction",
    "pillar",
    "pkgconfig",
    "prettyunits",
    "pROC",
    "progress",
    "PRROC",
    "purrr",
    "R6",
    "Rcpp",
    "RcppEigen",
    "readr",
    "rJava",
    "rlang",
    "RSQLite",
    "rstudioapi",
    "snow",
    "SqlRender",
    "stringi",
    "stringr",
    "survival",
    "tibble",
    "tidyr",
    "tidyselect",
    "triebeard",
    "tzdb",
    "urltools",
    "utf8",
    "vctrs",
    "vroom",
    "withr",
    "xml2",
    "zip"
  ],
  "_sysdeps": [
    {
      "shlib": "libjvm",
      "package": "openjdk-25-jre-headless",
      "headers": "openjdk-25-jre-headless",
      "source": "openjdk",
      "version": "25.0.4.1+1-1~26.04.4",
      "name": "openjdk",
      "homepage": "https://openjdk.java.net/",
      "description": "OpenJDK Java runtime, using Hotspot JIT (headless)"
    }
  ],
  "_vignettes": [
    {
      "source": "EvaluatingPhenotypeAlgorithms.rmd",
      "filename": "EvaluatingPhenotypeAlgorithms.html",
      "title": "EvaluatingPhenotypeAlgorithms",
      "author": "Joel N. Swerdel",
      "engine": "knitr::rmarkdown",
      "headings": [
        "Introduction",
        "Overview of Process",
        "Creating the Extremely Specific (xSpec), Extremely Sensitive (xSens), Prevalence, and Evaluation Cohorts",
        "Evaluating phenotype algorithms for health conditions",
        "Output from the process"
      ],
      "created": "2018-12-10 13:25:02",
      "modified": "2026-06-02 18:00:31",
      "commits": 18
    }
  ],
  "_score": 5.6211762817750355,
  "_indexed": true,
  "_nocasepkg": "phevaluator",
  "_universes": [
    "ohdsi",
    "jswerdel"
  ],
  "_binaries": [
    {
      "r": "4.7.0",
      "os": "linux",
      "version": "2.2.17",
      "date": "2026-10-25T12:01:27.000Z",
      "distro": "resolute",
      "commit": "81cdb797d19a6fc4deda7ce60737d0d8a29ec7a0",
      "fileid": "https://r2.ropensci.org/b251cb1465a41e34e8cf149a6c559db70812a2843f1829e2f39c25da3092766e",
      "status": "success",
      "check": "WARNING",
      "buildurl": "https://github.com/r-universe/ohdsi/actions/runs/40190611831"
    },
    {
      "r": "4.6.1",
      "os": "linux",
      "version": "2.2.17",
      "date": "2026-10-25T12:01:32.000Z",
      "distro": "resolute",
      "commit": "81cdb797d19a6fc4deda7ce60737d0d8a29ec7a0",
      "fileid": "https://r2.ropensci.org/8ac06aa25e301111593eee6092f04190491cb228e69570960230d9150e7f9e4f",
      "status": "success",
      "check": "WARNING",
      "buildurl": "https://github.com/r-universe/ohdsi/actions/runs/40190611831"
    },
    {
      "r": "4.5.3",
      "os": "mac",
      "version": "2.2.17",
      "date": "2026-10-25T12:15:04.000Z",
      "commit": "81cdb797d19a6fc4deda7ce60737d0d8a29ec7a0",
      "fileid": "https://r2.ropensci.org/5900fc68f71d1826e7c311c7cf78515558318ac729c6ef5210bb0b6a4816db39",
      "status": "success",
      "check": "WARNING",
      "buildurl": "https://github.com/r-universe/ohdsi/actions/runs/40190611831"
    },
    {
      "r": "4.6.1",
      "os": "mac",
      "version": "2.2.17",
      "date": "2026-10-25T12:15:06.000Z",
      "commit": "81cdb797d19a6fc4deda7ce60737d0d8a29ec7a0",
      "fileid": "https://r2.ropensci.org/7cae1ad55c21458467e68df02f1e82773d9ad5345e0d5f5437dcab917c9c0e2d",
      "status": "success",
      "check": "WARNING",
      "buildurl": "https://github.com/r-universe/ohdsi/actions/runs/40190611831"
    },
    {
      "r": "4.6.0",
      "os": "wasm",
      "version": "2.2.17",
      "date": "2026-10-25T12:01:33.000Z",
      "commit": "81cdb797d19a6fc4deda7ce60737d0d8a29ec7a0",
      "fileid": "https://r2.ropensci.org/b352f2d03bf6860f332d05aa33a7f8f6c85875393611c8b4c26a5f6671bc01cd",
      "status": "success",
      "buildurl": "https://github.com/r-universe/ohdsi/actions/runs/40190611831"
    },
    {
      "r": "4.7.0",
      "os": "win",
      "version": "2.2.17",
      "date": "2026-10-25T12:00:35.000Z",
      "commit": "81cdb797d19a6fc4deda7ce60737d0d8a29ec7a0",
      "fileid": "https://r2.ropensci.org/df9622c30ea3c41244db448e45474a3e2f1841ff833bd95ba94fa4143ab85e76",
      "status": "success",
      "check": "WARNING",
      "buildurl": "https://github.com/r-universe/ohdsi/actions/runs/40190611831"
    },
    {
      "r": "4.5.3",
      "os": "win",
      "version": "2.2.17",
      "date": "2026-10-25T12:00:23.000Z",
      "commit": "81cdb797d19a6fc4deda7ce60737d0d8a29ec7a0",
      "fileid": "https://r2.ropensci.org/3b55f95fa43d71a18e2cca438fb83e7de5813f190e2160fd2ee5cf2c4bba083c",
      "status": "success",
      "check": "WARNING",
      "buildurl": "https://github.com/r-universe/ohdsi/actions/runs/40190611831"
    },
    {
      "r": "4.6.1",
      "os": "win",
      "version": "2.2.17",
      "date": "2026-10-25T12:00:49.000Z",
      "commit": "81cdb797d19a6fc4deda7ce60737d0d8a29ec7a0",
      "fileid": "https://r2.ropensci.org/8fa96f34456cc2b913e2dc9b5d0e5a2c89b43d19f3ab535450958164f6676c9b",
      "status": "success",
      "check": "WARNING",
      "buildurl": "https://github.com/r-universe/ohdsi/actions/runs/40190611831"
    }
  ]
}