{
  "_id": "6a252f534b233be1983957f6",
  "Package": "xgxr",
  "Title": "Exploratory Graphics for Pharmacometrics",
  "Version": "1.1.5",
  "Authors@R": "c(person(given = \"Andrew\",\nfamily = \"Stein\",\nrole = c(\"aut\", \"cre\"),\nemail = \"andy.stein@gmail.com\"),\nperson(given = \"Alison\",\nfamily = \"Margolskee\",\nrole = \"aut\",\nemail = \"alison.margolskee@gmail.com\"),\nperson(given = \"Fariba\",\nfamily = \"Khanshan\",\nrole = \"aut\",\nemail = \"faribashan@gmail.com\"),\nperson(given = \"Konstantin\",\nfamily = \"Krismer\",\nrole = \"aut\",\nemail = \"krismer@mit.edu\",\ncomment = c(ORCID = \"0000-0001-8994-3416\")),\nperson(given = \"Matthew\",\nfamily = \"Fidler\",\nrole = \"ctb\",\nemail = \"matthew.fidler@gmail.com\",\ncomment = c(ORCID = \"0000-0001-8538-6691\")),\nperson(\"Novartis Pharma AG\", role = c(\"cph\",\"fnd\")))",
  "Description": "Supports a structured approach for exploring PKPD data\n<https://opensource.nibr.com/xgx/>. It also contains helper\nfunctions for enabling the modeler to follow best R practices\n(by appending the program name, figure name location, and draft\nstatus to each plot). In addition, it enables the modeler to\nfollow best graphical practices (by providing a theme that\nreduces chart ink, and by providing time-scale, log-scale, and\nreverse-log-transform-scale functions for more readable axes).\nFinally, it provides some data checking and summarizing\nfunctions for rapidly exploring pharmacokinetics and\npharmacodynamics (PKPD) datasets.",
  "License": "MIT + file LICENSE",
  "URL": "https://opensource.nibr.com/xgx/",
  "BugReports": "https://github.com/Novartis/xgxr/issues",
  "VignetteBuilder": "knitr",
  "Encoding": "UTF-8",
  "LazyData": "true",
  "RoxygenNote": "7.2.3",
  "Config/pak/sysreqs": "cmake make libicu-dev libpng-dev libuv1-dev\nlibssl-dev libx11-dev zlib1g-dev",
  "Repository": "https://novartis.r-universe.dev",
  "Date/Publication": "2025-07-12 21:07:43 UTC",
  "RemoteUrl": "https://github.com/novartis/xgxr",
  "RemoteRef": "HEAD",
  "RemoteSha": "2f8f6872142c159071308b60cb5794834336c406",
  "NeedsCompilation": "no",
  "Packaged": {
    "Date": "2026-06-07 08:40:07 UTC",
    "User": "root"
  },
  "Author": "Andrew Stein [aut, cre],\nAlison Margolskee [aut],\nFariba Khanshan [aut],\nKonstantin Krismer [aut] (ORCID:\n<https://orcid.org/0000-0001-8994-3416>),\nMatthew Fidler [ctb] (ORCID: <https://orcid.org/0000-0001-8538-6691>),\nNovartis Pharma AG [cph, fnd]",
  "Maintainer": "Andrew Stein <andy.stein@gmail.com>",
  "MD5sum": "0d9bd9fa82bb33fa11221a1a96ea111c",
  "_user": "novartis",
  "_type": "src",
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  "_created": "2026-06-07T08:40:07.000Z",
  "_published": "2026-06-07T08:44:03.896Z",
  "_distro": "noble",
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    "committer": "GitHub <noreply@github.com>",
    "message": "Merge pull request #70 from keithnewman/fix-number-breaks\n\nUse user-specified `number_breaks` argument",
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    "twitter": "@holymold",
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  "_dependencies": [
    {
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      "version": ">= 3.5.0",
      "role": "Depends"
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      "role": "Imports"
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    {
      "package": "binom",
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      "package": "Deriv",
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    {
      "package": "DescTools",
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    {
      "package": "ggplot2",
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    {
      "package": "glue",
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    {
      "package": "graphics",
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    },
    {
      "package": "grDevices",
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    },
    {
      "package": "gtable",
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    {
      "package": "Hmisc",
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    {
      "package": "labeling",
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    },
    {
      "package": "magrittr",
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    },
    {
      "package": "minpack.lm",
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    {
      "package": "pander",
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    {
      "package": "png",
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    },
    {
      "package": "RCurl",
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    {
      "package": "readr",
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    },
    {
      "package": "scales",
      "role": "Imports"
    },
    {
      "package": "stats",
      "role": "Imports"
    },
    {
      "package": "stringr",
      "role": "Imports"
    },
    {
      "package": "tibble",
      "role": "Imports"
    },
    {
      "package": "utils",
      "role": "Imports"
    },
    {
      "package": "vctrs",
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    },
    {
      "package": "caTools",
      "role": "Suggests"
    },
    {
      "package": "gridExtra",
      "role": "Suggests"
    },
    {
      "package": "knitr",
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    },
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    },
    {
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    }
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  "_owner": "novartis",
  "_selfowned": true,
  "_usedby": 6,
  "_updates": [
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      "week": "2025-28",
      "n": 1
    }
  ],
  "_tags": [],
  "_stars": 16,
  "_contributors": [
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      "uuid": 44787126
    },
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    },
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    },
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      "uuid": 514778
    },
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  ],
  "_userbio": {
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    "type": "organization",
    "name": "Novartis Open Source Initiative",
    "description": "Hosts open source projects for Novartis R&D. Details and instructions can be found on go/OSI (from Novartis network)."
  },
  "_downloads": {
    "count": 2426,
    "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/xgxr"
  },
  "_devurl": "https://github.com/novartis/xgxr",
  "_searchresults": 126,
  "_rbuild": "4.6.0",
  "_assets": [
    "extra/citation.cff",
    "extra/citation.html",
    "extra/citation.json",
    "extra/citation.txt",
    "extra/contents.json",
    "extra/NEWS.html",
    "extra/NEWS.txt",
    "extra/readme.html",
    "extra/readme.md",
    "extra/xgxr.html",
    "manual.pdf"
  ],
  "_homeurl": "https://github.com/novartis/xgxr",
  "_realowner": "novartis",
  "_cranurl": true,
  "_releases": [
    {
      "version": "1.0.0",
      "date": "2019-08-10"
    },
    {
      "version": "1.0.2",
      "date": "2019-08-21"
    },
    {
      "version": "1.0.3",
      "date": "2019-09-28"
    },
    {
      "version": "1.0.4",
      "date": "2019-10-10"
    },
    {
      "version": "1.0.5",
      "date": "2019-10-17"
    },
    {
      "version": "1.0.6",
      "date": "2019-12-09"
    },
    {
      "version": "1.0.7",
      "date": "2020-01-10"
    },
    {
      "version": "1.0.9",
      "date": "2020-04-14"
    },
    {
      "version": "1.1.0",
      "date": "2021-02-04"
    },
    {
      "version": "1.1.1",
      "date": "2021-04-22"
    },
    {
      "version": "1.1.2",
      "date": "2023-03-22"
    }
  ],
  "_exports": [
    "%>%",
    "edit_rmd_template_str",
    "get_rmd_name",
    "get_rmd_str",
    "gtable",
    "nlsLM",
    "StatSmoothOrdinal",
    "StatSummaryBinQuant",
    "StatSummaryOrdinal",
    "theme_xgx",
    "xgx_annotate_filenames",
    "xgx_annotate_status",
    "xgx_annotate_status_png",
    "xgx_auto_explore",
    "xgx_breaks_log10",
    "xgx_breaks_time",
    "xgx_check_data",
    "xgx_conf_int",
    "xgx_dirs2char",
    "xgx_geom_ci",
    "xgx_geom_pi",
    "xgx_geom_smooth",
    "xgx_geom_smooth_emax",
    "xgx_labels_log10",
    "xgx_minor_breaks_log10",
    "xgx_plot",
    "xgx_save",
    "xgx_save_table",
    "xgx_scale_x_log10",
    "xgx_scale_x_percentchangelog10",
    "xgx_scale_x_reverselog10",
    "xgx_scale_x_time_units",
    "xgx_scale_y_log10",
    "xgx_scale_y_percentchangelog10",
    "xgx_scale_y_reverselog10",
    "xgx_scale_y_time_units",
    "xgx_stat_ci",
    "xgx_stat_pi",
    "xgx_stat_smooth",
    "xgx_summarize_covariates",
    "xgx_summarize_data",
    "xgx_theme",
    "xgx_theme_set"
  ],
  "_datasets": [
    {
      "name": "case1_pkpd",
      "title": "Case 1 PKPD Data Set",
      "object": "case1_pkpd",
      "class": [
        "data.frame"
      ],
      "fields": [
        "ID",
        "TIME",
        "NOMTIME",
        "TIMEUNIT",
        "AMT",
        "LIDV",
        "CMT",
        "NAME",
        "EVENTU",
        "CENS",
        "EVID",
        "WEIGHTB",
        "eff0",
        "TRTACT",
        "DOSE",
        "PROFDAY",
        "PROFTIME",
        "CYCLE",
        "PART",
        "STUDY",
        "IPRED"
      ],
      "rows": 20820,
      "table": true,
      "tojson": true
    },
    {
      "name": "mad",
      "title": "Multiple Ascending Dose Data Set",
      "object": "mad",
      "class": [
        "data.frame"
      ],
      "fields": [
        "ID",
        "TIME",
        "NOMTIME",
        "TIMEUNIT",
        "AMT",
        "LIDV",
        "MDV",
        "CMT",
        "NAME",
        "EVENTU",
        "CENS",
        "EVID",
        "WEIGHTB",
        "SEX",
        "TRTACT",
        "DOSE",
        "PROFDAY",
        "PROFTIME",
        "CYCLE"
      ],
      "rows": 4160,
      "table": true,
      "tojson": true
    },
    {
      "name": "mad_missing_duplicates",
      "title": "Multiple Ascending Dose Data Set (Duplicates Removed)",
      "object": "mad_missing_duplicates",
      "class": [
        "data.frame"
      ],
      "fields": [
        "ID",
        "TIME",
        "NOMTIME",
        "TIMEUNIT",
        "AMT",
        "LIDV",
        "MDV",
        "CMT",
        "NAME",
        "EVENTU",
        "CENS",
        "EVID",
        "WEIGHTB",
        "SEX",
        "TRTACT",
        "DOSE",
        "PROFDAY",
        "PROFTIME",
        "CYCLE"
      ],
      "rows": 4168,
      "table": true,
      "tojson": true
    },
    {
      "name": "mad_nca",
      "title": "Multiple Ascending Dose Noncompartmental Analysis (NCA) dataset",
      "object": "mad_nca",
      "class": [
        "data.frame"
      ],
      "fields": [
        "ID",
        "PARAM",
        "VALUE",
        "DOSE",
        "TRTACT",
        "SEX",
        "WEIGHTB"
      ],
      "rows": 22200,
      "table": true,
      "tojson": true
    },
    {
      "name": "nlmixr_theo_sd",
      "title": "nlmixr Theophylline SD Data Set",
      "object": "nlmixr_theo_sd",
      "class": [
        "data.frame"
      ],
      "fields": [
        "ID",
        "TIME",
        "DV",
        "AMT",
        "EVID",
        "CMT",
        "WT"
      ],
      "rows": 144,
      "table": true,
      "tojson": true
    },
    {
      "name": "sad",
      "title": "Single Ascending Dose Data Set",
      "object": "sad",
      "class": [
        "data.frame"
      ],
      "fields": [
        "ID",
        "TIME",
        "NOMTIME",
        "TIMEUNIT",
        "AMT",
        "LIDV",
        "MDV",
        "CMT",
        "NAME",
        "EVENTU",
        "CENS",
        "EVID",
        "WEIGHTB",
        "SEX",
        "TRTACT",
        "DOSE"
      ],
      "rows": 700,
      "table": true,
      "tojson": true
    }
  ],
  "_help": [
    {
      "page": "case1_pkpd",
      "title": "Case 1 PKPD Data Set",
      "topics": [
        "case1_pkpd"
      ]
    },
    {
      "page": "edit_rmd_template_str",
      "title": "Edit a Rmd Template from xgx",
      "topics": [
        "edit_rmd_template_str"
      ]
    },
    {
      "page": "get_rmd_name",
      "title": "Determine the name of a Rmd template",
      "topics": [
        "get_rmd_name"
      ]
    },
    {
      "page": "get_rmd_str",
      "title": "'get_rmd_str' returns a Rmd template string, based on the desired PKPD parameters",
      "topics": [
        "get_rmd_str"
      ]
    },
    {
      "page": "mad",
      "title": "Multiple Ascending Dose Data Set",
      "topics": [
        "mad"
      ]
    },
    {
      "page": "mad_missing_duplicates",
      "title": "Multiple Ascending Dose Data Set (Duplicates Removed)",
      "topics": [
        "mad_missing_duplicates"
      ]
    },
    {
      "page": "mad_nca",
      "title": "Multiple Ascending Dose Noncompartmental Analysis (NCA) dataset",
      "topics": [
        "mad_nca"
      ]
    },
    {
      "page": "nlmixr_theo_sd",
      "title": "nlmixr Theophylline SD Data Set",
      "topics": [
        "nlmixr_theo_sd"
      ]
    },
    {
      "page": "predict.nls",
      "title": "predict.nls",
      "topics": [
        "predict.nls"
      ]
    },
    {
      "page": "predictdf",
      "title": "Prediction data frame from ggplot2 Get predictions with standard errors into data frame",
      "topics": [
        "predictdf"
      ]
    },
    {
      "page": "predictdf.nls",
      "title": "Prediction data frame for nls",
      "topics": [
        "predictdf.nls"
      ]
    },
    {
      "page": "predictdf.polr",
      "title": "Prediction data frame for polr",
      "topics": [
        "predictdf.polr"
      ]
    },
    {
      "page": "sad",
      "title": "Single Ascending Dose Data Set",
      "topics": [
        "sad"
      ]
    },
    {
      "page": "StatSmoothOrdinal",
      "title": "Stat object for producing smooths through ordinal data",
      "topics": [
        "StatSmoothOrdinal"
      ]
    },
    {
      "page": "StatSummaryBinQuant",
      "title": "Stat ggproto object for binning by quantile for xgx_stat_ci",
      "topics": [
        "StatSummaryBinQuant"
      ]
    },
    {
      "page": "StatSummaryOrdinal",
      "title": "Stat ggproto object for creating ggplot layers of binned confidence intervals for probabiliities of classes in ordinal data",
      "topics": [
        "StatSummaryOrdinal"
      ]
    },
    {
      "page": "theme_xgx",
      "title": "Calls the standard theme for xGx graphics",
      "topics": [
        "theme_xgx"
      ]
    },
    {
      "page": "xgx_annotate_filenames",
      "title": "Append filenames to bottom of the plot",
      "topics": [
        "xgx_annotate_filenames"
      ]
    },
    {
      "page": "xgx_annotate_status",
      "title": "Create a status (e.g. DRAFT) annotation layer",
      "topics": [
        "xgx_annotate_status"
      ]
    },
    {
      "page": "xgx_annotate_status_png",
      "title": "Annotate a png file or directory of png files",
      "topics": [
        "xgx_annotate_status_png"
      ]
    },
    {
      "page": "xgx_auto_explore",
      "title": "Produce an xgx-styled report the given dataset using xgx R markdown templates, or a user-provided R markdown template.  (Note: The R markdown template provided must be formatted in a similar manner to that of the xgx R markdown templates to work.) The working directory will contain a new directory (`xgx_autoexplore_output`) after running this function, which will contain a directory for the dataset, and futher a directory for the type of analysis / R markdown template.",
      "topics": [
        "xgx_auto_explore"
      ]
    },
    {
      "page": "xgx_breaks_log10",
      "title": "Sets the default breaks for log10",
      "topics": [
        "xgx_breaks_log10"
      ]
    },
    {
      "page": "xgx_breaks_time",
      "title": "Sets the default breaks for a time axis",
      "topics": [
        "xgx_breaks_time"
      ]
    },
    {
      "page": "xgx_check_data",
      "title": "Check data for various issues",
      "topics": [
        "xgx_check_data"
      ]
    },
    {
      "page": "xgx_conf_int",
      "title": "'xgx_conf_int' returns a dataframe with mean +/- confidence intervals",
      "topics": [
        "xgx_conf_int"
      ]
    },
    {
      "page": "xgx_dirs2char",
      "title": "Append filenames to bottom of the plot",
      "topics": [
        "xgx_dirs2char"
      ]
    },
    {
      "page": "xgx_geom_ci",
      "title": "Plot data with mean and confidence intervals",
      "topics": [
        "xgx_geom_ci"
      ]
    },
    {
      "page": "xgx_geom_pi",
      "title": "Plot data with median and percent intervals",
      "topics": [
        "xgx_geom_pi"
      ]
    },
    {
      "page": "xgx_labels_log10",
      "title": "Nice labels for log10.",
      "topics": [
        "xgx_labels_log10"
      ]
    },
    {
      "page": "xgx_minor_breaks_log10",
      "title": "Sets the default minor_breaks for log10 scales",
      "topics": [
        "xgx_minor_breaks_log10"
      ]
    },
    {
      "page": "xgx_plot",
      "title": "Create a new xgx plot",
      "topics": [
        "xgx_plot"
      ]
    },
    {
      "page": "xgx_save",
      "title": "Saving plot, automatically annotating the status and denoting the filenames",
      "topics": [
        "xgx_save"
      ]
    },
    {
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