{
  "_id": "6a1ee6b7b401979e734115cb",
  "Package": "GeoTox",
  "Title": "Spatiotemporal Mixture Risk Assessment",
  "Version": "1.0.0",
  "Authors@R": "c(\nperson(\"Skylar\", \"Marvel\", , \"skylar.marvel@nih.gov\", role = c(\"aut\", \"cre\"),\ncomment = c(ORCID = \"0000-0002-2971-9743\")),\nperson(\"David\", \"Reif\", , \"david.reif@nih.gov\", role = \"aut\",\ncomment = c(ORCID = \"0000-0001-7815-6767\")),\nperson(\"Kyle\", \"Messier\", , \"kyle.messier@nih.gov\", role = \"aut\",\ncomment = c(ORCID = \"0000-0001-9508-9623\")),\nperson(\"Spatiotemporal Exposures and Toxicology Group\", role = \"cph\")\n)",
  "Description": "Connecting spatiotemporal exposure to individual and\npopulation-level risk via source-to-outcome continuum modeling.\nThe package, methods, and case-studies are described in\nMessier, Reif, and Marvel (2025)\n<doi:10.1186/s40246-024-00711-8> and Eccles et al. (2023)\n<doi:10.1016/j.scitotenv.2022.158905>.",
  "License": "MIT + file LICENSE",
  "URL": "https://niehs.github.io/GeoTox/, https://github.com/NIEHS/GeoTox",
  "BugReports": "https://github.com/NIEHS/GeoTox/issues",
  "VignetteBuilder": "knitr, quarto",
  "Config/Needs/website": "rmarkdown, quarto",
  "Config/roxygen2/version": "8.0.0",
  "Config/testthat/edition": "3",
  "Encoding": "UTF-8",
  "LazyData": "true",
  "Roxygen": "list(markdown = TRUE)",
  "Config/pak/sysreqs": "libicu-dev xz-utils",
  "Repository": "https://niehs.r-universe.dev",
  "Date/Publication": "2026-05-19 22:23:55 UTC",
  "RemoteUrl": "https://github.com/niehs/geotox",
  "RemoteRef": "HEAD",
  "RemoteSha": "5bc06287554a157834ab9f4f1a4656855d92fc47",
  "NeedsCompilation": "no",
  "Packaged": {
    "Date": "2026-05-19 23:17:32 UTC",
    "User": "root"
  },
  "Author": "Skylar Marvel [aut, cre] (ORCID:\n<https://orcid.org/0000-0002-2971-9743>),\nDavid Reif [aut] (ORCID: <https://orcid.org/0000-0001-7815-6767>),\nKyle Messier [aut] (ORCID: <https://orcid.org/0000-0001-9508-9623>),\nSpatiotemporal Exposures and Toxicology Group [cph]",
  "Maintainer": "Skylar Marvel <skylar.marvel@nih.gov>",
  "MD5sum": "84afd0154e528997fac8625100a4cbca",
  "_user": "niehs",
  "_type": "src",
  "_file": "GeoTox_1.0.0.tar.gz",
  "_fileid": "51e31e1ad9c5538f93e8fe6fb65681f5954544556845b96d3f6122afadd9bf34",
  "_filesize": 2657126,
  "_sha256": "51e31e1ad9c5538f93e8fe6fb65681f5954544556845b96d3f6122afadd9bf34",
  "_created": "2026-05-19T23:17:32.000Z",
  "_published": "2026-06-02T14:20:39.612Z",
  "_distro": "noble",
  "_jobs": [
    {
      "job": 79092652736,
      "time": 294,
      "config": "linux-devel-x86_64",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "7097714504"
    },
    {
      "job": 79092652953,
      "time": 246,
      "config": "linux-release-x86_64",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7097704371"
    },
    {
      "job": 79092653064,
      "time": 300,
      "config": "macos-oldrel-arm64",
      "r": "4.5.3",
      "check": "OK",
      "artifact": "7097708334"
    },
    {
      "job": 79092652648,
      "time": 324,
      "config": "macos-release-arm64",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7097712889"
    },
    {
      "job": 79092651963,
      "time": 252,
      "config": "source",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7097647600"
    },
    {
      "job": 79092651164,
      "time": 131,
      "config": "wasm-release",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7360371051"
    },
    {
      "job": 79092652595,
      "time": 301,
      "config": "windows-devel",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "7097716358"
    },
    {
      "job": 79092652556,
      "time": 316,
      "config": "windows-oldrel",
      "r": "4.5.3",
      "check": "OK",
      "artifact": "7097720248"
    },
    {
      "job": 79092652701,
      "time": 233,
      "config": "windows-release",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7097701074"
    }
  ],
  "_buildurl": "https://github.com/r-universe/niehs/actions/runs/26130979459",
  "_status": "success",
  "_host": "GitHub-Actions",
  "_upstream": "https://github.com/niehs/geotox",
  "_commit": {
    "id": "5bc06287554a157834ab9f4f1a4656855d92fc47",
    "author": "SkylarMarvel <57526164+SkylarMarvel@users.noreply.github.com>",
    "committer": "GitHub <noreply@github.com>",
    "message": "GeoTox release v1.0.0\n\nDuckDB implementation",
    "time": 1779229435
  },
  "_maintainer": {
    "name": "Skylar Marvel",
    "email": "skylar.marvel@nih.gov",
    "login": "skylarmarvel",
    "description": "",
    "uuid": 57526164,
    "orcid": "0000-0002-2971-9743"
  },
  "_registered": true,
  "_dependencies": [
    {
      "package": "R",
      "version": ">= 4.4.0",
      "role": "Depends"
    },
    {
      "package": "DBI",
      "role": "Imports"
    },
    {
      "package": "dbplyr",
      "role": "Imports"
    },
    {
      "package": "dplyr",
      "role": "Imports"
    },
    {
      "package": "duckdb",
      "role": "Imports"
    },
    {
      "package": "duckplyr",
      "role": "Imports"
    },
    {
      "package": "purrr",
      "role": "Imports"
    },
    {
      "package": "rlang",
      "role": "Imports"
    },
    {
      "package": "tibble",
      "role": "Imports"
    },
    {
      "package": "tidyr",
      "role": "Imports"
    },
    {
      "package": "tidyselect",
      "role": "Imports"
    },
    {
      "package": "truncnorm",
      "role": "Imports"
    },
    {
      "package": "blob",
      "role": "Suggests"
    },
    {
      "package": "ggplot2",
      "role": "Suggests"
    },
    {
      "package": "ggridges",
      "role": "Suggests"
    },
    {
      "package": "httk",
      "role": "Suggests"
    },
    {
      "package": "httr2",
      "role": "Suggests"
    },
    {
      "package": "knitr",
      "role": "Suggests"
    },
    {
      "package": "quarto",
      "role": "Suggests"
    },
    {
      "package": "readr",
      "role": "Suggests"
    },
    {
      "package": "readxl",
      "role": "Suggests"
    },
    {
      "package": "rmarkdown",
      "role": "Suggests"
    },
    {
      "package": "sf",
      "role": "Suggests"
    },
    {
      "package": "stringr",
      "role": "Suggests"
    },
    {
      "package": "testthat",
      "version": ">= 3.0.0",
      "role": "Suggests"
    },
    {
      "package": "withr",
      "role": "Suggests"
    },
    {
      "package": "zip",
      "role": "Suggests"
    }
  ],
  "_owner": "niehs",
  "_selfowned": true,
  "_usedby": 0,
  "_updates": [
    {
      "week": "2026-02",
      "n": 1
    },
    {
      "week": "2026-04",
      "n": 3
    },
    {
      "week": "2026-21",
      "n": 1
    }
  ],
  "_tags": [
    {
      "name": "v0.3.0",
      "date": "2026-01-16"
    },
    {
      "name": "v1.0.0",
      "date": "2026-05-19"
    }
  ],
  "_stars": 7,
  "_contributors": [
    {
      "user": "kyle-messier",
      "count": 122,
      "uuid": 127860447
    },
    {
      "user": "skylarmarvel",
      "count": 80,
      "uuid": 57526164
    },
    {
      "user": "davidmreif",
      "count": 2,
      "uuid": 42413358
    }
  ],
  "_userbio": {
    "uuid": 22938605,
    "type": "organization",
    "name": "National Institute of Environmental Health Science",
    "description": "The mission of the National Institute of Environmental Health Sciences is to discover how the environment affects people in order to promote healthier lives."
  },
  "_downloads": {
    "count": 518,
    "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/GeoTox"
  },
  "_devurl": "https://github.com/niehs/geotox",
  "_pkgdown": "https://niehs.github.io/GeoTox/",
  "_searchresults": 4,
  "_quarto": true,
  "_topics": [
    "quarto"
  ],
  "_rbuild": "4.6.0",
  "_assets": [
    "extra/citation.cff",
    "extra/citation.html",
    "extra/citation.json",
    "extra/citation.txt",
    "extra/contents.json",
    "extra/GeoTox.html",
    "extra/NEWS.html",
    "extra/NEWS.txt",
    "extra/readme.html",
    "extra/readme.md",
    "manual.pdf"
  ],
  "_homeurl": "https://github.com/niehs/geotox",
  "_realowner": "niehs",
  "_cranurl": true,
  "_releases": [
    {
      "version": "0.2.0",
      "date": "2024-11-15"
    },
    {
      "version": "0.3.0",
      "date": "2026-01-16"
    },
    {
      "version": "1.0.0",
      "date": "2026-05-19"
    }
  ],
  "_exports": [
    "add_age",
    "add_exposure",
    "add_exposure_rate_params",
    "add_hill_params",
    "add_obesity",
    "calc_internal_dose",
    "calc_invitro_concentration",
    "calc_response",
    "calc_risk",
    "calc_sensitivity",
    "fit_hill",
    "GeoTox",
    "get_assay_table",
    "get_boundary",
    "get_con",
    "get_concentration_mean",
    "get_risk_quantiles",
    "get_risk_sensitivity",
    "get_risk_values",
    "sample_simulated_css",
    "sensitivity_analysis",
    "set_boundary",
    "set_fixed_css",
    "set_sample",
    "set_simulated_css",
    "simulate_age",
    "simulate_exposure",
    "simulate_exposure_rate",
    "simulate_obesity",
    "simulate_population"
  ],
  "_datasets": [
    {
      "name": "geo_tox_data",
      "title": "GeoTox Data",
      "object": "geo_tox_data",
      "class": [
        "list"
      ],
      "fields": [],
      "table": false,
      "tojson": true
    }
  ],
  "_help": [
    {
      "page": "add_age",
      "title": "Add age simulation data",
      "topics": [
        "add_age"
      ]
    },
    {
      "page": "add_exposure",
      "title": "Add exposure simulation data",
      "topics": [
        "add_exposure"
      ]
    },
    {
      "page": "add_exposure_rate_params",
      "title": "Add exposure rate simulation data",
      "topics": [
        "add_exposure_rate_params"
      ]
    },
    {
      "page": "add_hill_params",
      "title": "Add Hill model parameters",
      "topics": [
        "add_hill_params"
      ]
    },
    {
      "page": "add_obesity",
      "title": "Add obesity simulation data",
      "topics": [
        "add_obesity"
      ]
    },
    {
      "page": "calc_internal_dose",
      "title": "Calculate internal dose",
      "topics": [
        "calc_internal_dose"
      ]
    },
    {
      "page": "calc_invitro_concentration",
      "title": "Calculate in vitro concentration",
      "topics": [
        "calc_invitro_concentration"
      ]
    },
    {
      "page": "calc_response",
      "title": "Calculate concentrations and risks",
      "topics": [
        "calc_response"
      ]
    },
    {
      "page": "calc_risk",
      "title": "Calculate risk scores",
      "topics": [
        "calc_risk"
      ]
    },
    {
      "page": "calc_sensitivity",
      "title": "Calculate risk sensitivity to a single variable",
      "topics": [
        "calc_sensitivity"
      ]
    },
    {
      "page": "fit_hill",
      "title": "Fit 2- or 3-parameter Hill model",
      "topics": [
        "fit_hill"
      ]
    },
    {
      "page": "geo_tox_data",
      "title": "GeoTox Data",
      "topics": [
        "geo_tox_data"
      ]
    },
    {
      "page": "GeoTox",
      "title": "GeoTox S3 object",
      "topics": [
        "GeoTox",
        "get_con"
      ]
    },
    {
      "page": "get_risk_values",
      "title": "Get risk metric results",
      "topics": [
        "get_assay_table",
        "get_risk_quantiles",
        "get_risk_sensitivity",
        "get_risk_values"
      ]
    },
    {
      "page": "get_concentration_mean",
      "title": "Get concentration mean values",
      "topics": [
        "get_concentration_mean"
      ]
    },
    {
      "page": "sample_simulated_css",
      "title": "Sample from pre-simulated steady-state plasma concentrations",
      "topics": [
        "sample_simulated_css"
      ]
    },
    {
      "page": "sensitivity_analysis",
      "title": "Perform sensitivity analysis",
      "topics": [
        "sensitivity_analysis"
      ]
    },
    {
      "page": "set_boundary",
      "title": "Store and retrieve boundary geometries",
      "topics": [
        "get_boundary",
        "set_boundary"
      ]
    },
    {
      "page": "set_fixed_css",
      "title": "Prepare steady-state plasma concentrations for sensitivity analysis",
      "topics": [
        "set_fixed_css"
      ]
    },
    {
      "page": "set_sample",
      "title": "Set sample data",
      "topics": [
        "set_sample"
      ]
    },
    {
      "page": "set_simulated_css",
      "title": "Set pre-simulated steady-state plasma concentrations",
      "topics": [
        "set_simulated_css"
      ]
    },
    {
      "page": "simulate_age",
      "title": "Simulate age values",
      "topics": [
        "simulate_age"
      ]
    },
    {
      "page": "simulate_exposure",
      "title": "Simulate exposure concentrations",
      "topics": [
        "simulate_exposure"
      ]
    },
    {
      "page": "simulate_exposure_rate",
      "title": "Simulate exposure rates",
      "topics": [
        "simulate_exposure_rate"
      ]
    },
    {
      "page": "simulate_obesity",
      "title": "Simulate obesity values",
      "topics": [
        "simulate_obesity"
      ]
    },
    {
      "page": "simulate_population",
      "title": "Simulate population characteristics and exposures",
      "topics": [
        "simulate_population"
      ]
    }
  ],
  "_pkglogo": "https://github.com/niehs/geotox/raw/HEAD/man/figures/logo.svg",
  "_readme": "https://github.com/niehs/geotox/raw/HEAD/README.md",
  "_rundeps": [
    "blob",
    "cachem",
    "cli",
    "collections",
    "cpp11",
    "DBI",
    "dbplyr",
    "dplyr",
    "duckdb",
    "duckplyr",
    "fastmap",
    "generics",
    "glue",
    "jsonlite",
    "lifecycle",
    "magrittr",
    "memoise",
    "pillar",
    "pkgconfig",
    "purrr",
    "R6",
    "rlang",
    "stringi",
    "stringr",
    "tibble",
    "tidyr",
    "tidyselect",
    "truncnorm",
    "utf8",
    "vctrs",
    "withr"
  ],
  "_vignettes": [
    {
      "source": "package_data.qmd",
      "filename": "package_data.html",
      "title": "GeoTox Package Data",
      "engine": "quarto::html",
      "headings": [],
      "created": "2026-05-19 22:23:55",
      "modified": "2026-05-19 22:23:55",
      "commits": 1
    }
  ],
  "_score": 5.3222192947339195,
  "_indexed": true,
  "_nocasepkg": "geotox",
  "_universes": [
    "niehs",
    "skylarmarvel"
  ],
  "_binaries": [
    {
      "r": "4.7.0",
      "os": "linux",
      "version": "1.0.0",
      "date": "2026-05-19T23:20:58.000Z",
      "distro": "noble",
      "commit": "5bc06287554a157834ab9f4f1a4656855d92fc47",
      "fileid": "17f4667201ccf80c2c056bb1e9ef854cfc88154ece18d23344ddd951d262808e",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/niehs/actions/runs/26130979459"
    },
    {
      "r": "4.6.0",
      "os": "linux",
      "version": "1.0.0",
      "date": "2026-05-19T23:20:15.000Z",
      "distro": "noble",
      "commit": "5bc06287554a157834ab9f4f1a4656855d92fc47",
      "fileid": "b2dc3a2c9b1c7a982cf938339987cfd3c39cc9628b989c64c51fcd5aeb331478",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/niehs/actions/runs/26130979459"
    },
    {
      "r": "4.5.3",
      "os": "mac",
      "version": "1.0.0",
      "date": "2026-05-19T23:21:03.000Z",
      "commit": "5bc06287554a157834ab9f4f1a4656855d92fc47",
      "fileid": "674a479a3f6b69c146d364df14eda6a5d2ee4d0e58b2404cbca7c5fd1f2d2b9e",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/niehs/actions/runs/26130979459"
    },
    {
      "r": "4.6.0",
      "os": "mac",
      "version": "1.0.0",
      "date": "2026-05-19T23:21:12.000Z",
      "commit": "5bc06287554a157834ab9f4f1a4656855d92fc47",
      "fileid": "c5b7281ec0379f7cf093824747944ba56f1353c3760375702aca266ff83daef6",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/niehs/actions/runs/26130979459"
    },
    {
      "r": "4.7.0",
      "os": "win",
      "version": "1.0.0",
      "date": "2026-05-19T23:20:33.000Z",
      "commit": "5bc06287554a157834ab9f4f1a4656855d92fc47",
      "fileid": "b1446b8b1d02562ec9b263cd6dc556263eebdd1126b762a63552180d644173cf",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/niehs/actions/runs/26130979459"
    },
    {
      "r": "4.5.3",
      "os": "win",
      "version": "1.0.0",
      "date": "2026-05-19T23:20:22.000Z",
      "commit": "5bc06287554a157834ab9f4f1a4656855d92fc47",
      "fileid": "20abd4734399b0ac7ca7687e9f10115fd07919a3e3685112b705a6df1fda7573",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/niehs/actions/runs/26130979459"
    },
    {
      "r": "4.6.0",
      "os": "win",
      "version": "1.0.0",
      "date": "2026-05-19T23:19:27.000Z",
      "commit": "5bc06287554a157834ab9f4f1a4656855d92fc47",
      "fileid": "daee32f860f8269cc068ad124022279aaa2b52aa02b2cbae7f9cc2c80adb2934",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/niehs/actions/runs/26130979459"
    },
    {
      "r": "4.6.0",
      "os": "wasm",
      "version": "1.0.0",
      "date": "2026-06-02T14:19:15.000Z",
      "commit": "5bc06287554a157834ab9f4f1a4656855d92fc47",
      "fileid": "7b3865cbc4753fffbf4aef1815517a97447daaf75a8b02b6b1c1f9ff7f08812e",
      "status": "success",
      "buildurl": "https://github.com/r-universe/niehs/actions/runs/26130979459"
    }
  ]
}