{
  "_id": "6a51f9419b92047c28d53473",
  "Package": "isoreader2",
  "Title": "Read Stable Isotope Data Files",
  "Version": "0.6.1",
  "Authors@R": "c(\nperson(\ngiven = \"Sebastian\", family = \"Kopf\",\nemail = \"sebastian.kopf@colorado.edu\",\nrole = c(\"aut\", \"cre\"),\ncomment = c(ORCID = \"0000-0002-2044-0201\"))\n)",
  "Description": "Interface to the raw data and metadata stored in the file\nformats commonly encountered in scientific disciplines that\nmake use of stable isotopes. Supports Isodat (.dxf, .cf, .did,\n.caf, .scn), IonOS (.iarc), LyticOS (.larc), Callisto (.bch),\nand Qtegra (.imexp) file formats. Provides a consistent data\nstructure together with tools to aggregate, convert signal\nunits, filter, and visualize the extracted data. The approach\nis described in Kopf et al. (2021) <doi:10.21105/joss.02878>.",
  "License": "AGPL (>= 3)",
  "Encoding": "UTF-8",
  "Roxygen": "list(markdown = TRUE)",
  "URL": "https://isoreader2.isoverse.org/,\nhttps://github.com/isoverse/isoreader2",
  "BugReports": "https://github.com/isoverse/isoreader2/issues",
  "VignetteBuilder": "knitr",
  "Config/testthat/edition": "3",
  "Config/roxygen2/version": "8.0.0",
  "Config/pak/sysreqs": "libicu-dev libx11-dev",
  "Repository": "https://isoverse.r-universe.dev",
  "Date/Publication": "2026-07-03 18:57:05 UTC",
  "RemoteUrl": "https://github.com/isoverse/isoreader2",
  "RemoteRef": "HEAD",
  "RemoteSha": "85b21333d60054664f3b3876ad0a72fa91941b58",
  "NeedsCompilation": "no",
  "Packaged": {
    "Date": "2026-07-11 08:01:12 UTC",
    "User": "root"
  },
  "Author": "Sebastian Kopf [aut, cre] (ORCID:\n<https://orcid.org/0000-0002-2044-0201>)",
  "Maintainer": "Sebastian Kopf <sebastian.kopf@colorado.edu>",
  "_user": "isoverse",
  "_type": "src",
  "_file": "isoreader2_0.6.1.tar.gz",
  "_fileid": "https://r2.ropensci.org/ca48afc8eb4256f6906b0809b05486e5b40f42b0bb2b2dff6b84c7987cd2dada",
  "_filesize": 4574820,
  "_sha256": "ca48afc8eb4256f6906b0809b05486e5b40f42b0bb2b2dff6b84c7987cd2dada",
  "_expires": "2026-10-19T08:05:19.000Z",
  "_created": "2026-07-11T08:01:12.000Z",
  "_published": "2026-07-11T08:05:21.126Z",
  "_jobs": [
    {
      "job": 86526146049,
      "time": 194,
      "config": "linux-devel-x86_64",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "8246613771"
    },
    {
      "job": 86526146053,
      "time": 200,
      "config": "linux-release-x86_64",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "8246614608"
    },
    {
      "job": 86526146055,
      "time": 154,
      "config": "macos-oldrel-arm64",
      "r": "4.5.3",
      "check": "OK",
      "artifact": "8246606272"
    },
    {
      "job": 86526146052,
      "time": 165,
      "config": "macos-release-arm64",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "8246607103"
    },
    {
      "job": 86525872527,
      "time": 215,
      "config": "source",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "8246587846"
    },
    {
      "job": 86526146063,
      "time": 144,
      "config": "wasm-release",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "8246607066"
    },
    {
      "job": 86526146047,
      "time": 132,
      "config": "windows-devel",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "8246605895"
    },
    {
      "job": 86526146051,
      "time": 119,
      "config": "windows-oldrel",
      "r": "4.5.3",
      "check": "OK",
      "artifact": "8246604146"
    },
    {
      "job": 86526146046,
      "time": 129,
      "config": "windows-release",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "8246605451"
    }
  ],
  "_host": "GitHub-Actions",
  "_buildurl": "https://github.com/r-universe/isoverse/actions/runs/29145352900",
  "_status": "success",
  "_upstream": "https://github.com/isoverse/isoreader2",
  "_commit": {
    "id": "85b21333d60054664f3b3876ad0a72fa91941b58",
    "author": "Sebastian Kopf <seb.kopf@gmail.com>",
    "committer": "Sebastian Kopf <seb.kopf@gmail.com>",
    "message": "update badges\n",
    "time": 1783105025
  },
  "_maintainer": {
    "name": "Sebastian Kopf",
    "email": "sebastian.kopf@colorado.edu",
    "login": "sebkopf",
    "description": "Associate Professor at CU Boulder (github.com/KopfLab). Open source science nerd & developer of research tools in R, C++ and openSCAD. ",
    "uuid": 5498966,
    "orcid": "0000-0002-2044-0201"
  },
  "_distro": "resolute",
  "_registered": true,
  "_dependencies": [
    {
      "package": "R",
      "version": ">= 4.5.0",
      "role": "Depends"
    },
    {
      "package": "ggplot2",
      "role": "Imports"
    },
    {
      "package": "tools",
      "role": "Imports"
    },
    {
      "package": "utils",
      "role": "Imports"
    },
    {
      "package": "methods",
      "role": "Imports"
    },
    {
      "package": "stats",
      "role": "Imports"
    },
    {
      "package": "rlang",
      "version": ">= 1.1.0",
      "role": "Imports"
    },
    {
      "package": "cli",
      "version": ">= 3.6.0",
      "role": "Imports"
    },
    {
      "package": "processx",
      "role": "Imports"
    },
    {
      "package": "readr",
      "role": "Imports"
    },
    {
      "package": "tibble",
      "role": "Imports"
    },
    {
      "package": "dplyr",
      "role": "Imports"
    },
    {
      "package": "tidyr",
      "role": "Imports"
    },
    {
      "package": "purrr",
      "role": "Imports"
    },
    {
      "package": "withr",
      "role": "Imports"
    },
    {
      "package": "RcppSimdJson",
      "role": "Imports"
    },
    {
      "package": "scales",
      "role": "Imports"
    },
    {
      "package": "fansi",
      "role": "Imports"
    },
    {
      "package": "knitr",
      "role": "Imports"
    },
    {
      "package": "testthat",
      "version": ">= 3.0.0",
      "role": "Suggests"
    },
    {
      "package": "vdiffr",
      "role": "Suggests"
    },
    {
      "package": "arrow",
      "role": "Suggests"
    },
    {
      "package": "openxlsx",
      "role": "Suggests"
    },
    {
      "package": "rmarkdown",
      "role": "Suggests"
    }
  ],
  "_owner": "isoverse",
  "_selfowned": true,
  "_usedby": 0,
  "_updates": [
    {
      "week": "2026-02",
      "n": 10
    },
    {
      "week": "2026-22",
      "n": 30
    },
    {
      "week": "2026-23",
      "n": 106
    },
    {
      "week": "2026-24",
      "n": 40
    },
    {
      "week": "2026-25",
      "n": 38
    },
    {
      "week": "2026-26",
      "n": 17
    },
    {
      "week": "2026-27",
      "n": 8
    }
  ],
  "_tags": [
    {
      "name": "isosolfs-v0.1.0",
      "date": "2026-01-09"
    }
  ],
  "_stars": 0,
  "_contributors": [
    {
      "user": "sebkopf",
      "count": 249,
      "uuid": 5498966
    },
    {
      "user": "rohanjain11",
      "count": 1,
      "uuid": 108605232
    }
  ],
  "_userbio": {
    "uuid": 47226588,
    "type": "organization",
    "name": "isoverse",
    "followers": 16,
    "description": "open-source data tools for stable isotopes"
  },
  "_downloads": {
    "count": 0,
    "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/isoreader2"
  },
  "_devurl": "https://github.com/isoverse/isoreader2",
  "_pkgdown": "https://isoreader2.isoverse.org/",
  "_searchresults": 5,
  "_rbuild": "4.6.1",
  "_assets": [
    "extra/citation.cff",
    "extra/citation.html",
    "extra/citation.json",
    "extra/citation.txt",
    "extra/contents.json",
    "extra/isoreader2.html",
    "extra/NEWS.html",
    "extra/NEWS.txt",
    "extra/readme.html",
    "extra/readme.md",
    "manual.pdf"
  ],
  "_homeurl": "https://github.com/isoverse/isoreader2",
  "_realowner": "isoverse",
  "_cranurl": true,
  "_releases": [
    {
      "version": "0.6.1",
      "date": "2026-07-10"
    }
  ],
  "_exports": [
    "auto",
    "ir_add_to_aggregator",
    "ir_aggregate_isofiles",
    "ir_calculate_ratios",
    "ir_check_isoextract",
    "ir_check_isosolfs",
    "ir_convert_intensity",
    "ir_copy_examples",
    "ir_default_theme",
    "ir_examples_folder",
    "ir_export_to_excel",
    "ir_extract_isofiles",
    "ir_filter_for_continuous_flow",
    "ir_filter_for_dual_inlet",
    "ir_filter_for_scans",
    "ir_filter_metadata",
    "ir_find_continuous_flow",
    "ir_find_dual_inlet",
    "ir_find_isofiles",
    "ir_find_scans",
    "ir_generate_cycles_tibble",
    "ir_generate_scans_tibble",
    "ir_generate_traces_tibble",
    "ir_get_aggregator",
    "ir_get_cycles",
    "ir_get_data",
    "ir_get_isoextract_version",
    "ir_get_metadata",
    "ir_get_option",
    "ir_get_options",
    "ir_get_problems",
    "ir_get_resistors",
    "ir_get_scans",
    "ir_get_supported_file_types",
    "ir_get_traces",
    "ir_get_vendor_data_table",
    "ir_join_metadata",
    "ir_load_aggregated_data",
    "ir_load_isofiles",
    "ir_mutate_metadata",
    "ir_options",
    "ir_plot_continuous_flow",
    "ir_plot_dual_inlet",
    "ir_plot_scans",
    "ir_read_isofiles",
    "ir_register_aggregator",
    "ir_save_aggregated_data",
    "ir_save_isofiles",
    "ir_show_problems",
    "ir_start_aggregator"
  ],
  "_help": [
    {
      "page": "isoreader2-package",
      "title": "isoreader2: Read Stable Isotope Data Files",
      "topics": [
        "isoreader2-package",
        "isoreader2"
      ]
    },
    {
      "page": "auto",
      "title": "Automatic / default behavior",
      "topics": [
        "auto"
      ]
    },
    {
      "page": "c.ir_aggregated_data",
      "title": "Combine aggregated isofile data",
      "topics": [
        "c.ir_aggregated_data"
      ]
    },
    {
      "page": "c.ir_isofiles",
      "title": "Combine isofiles",
      "topics": [
        "c.ir_isofiles"
      ]
    },
    {
      "page": "ir_aggregate_isofiles",
      "title": "Aggregate data from isofiles",
      "topics": [
        "ir_aggregate_isofiles"
      ]
    },
    {
      "page": "ir_calculate_ratios",
      "title": "Calculate isotope ratios",
      "topics": [
        "ir_calculate_ratios"
      ]
    },
    {
      "page": "ir_check_isoextract",
      "title": "Check for the isoextract executables",
      "topics": [
        "ir_check_isoextract",
        "ir_check_isosolfs"
      ]
    },
    {
      "page": "ir_convert_intensity",
      "title": "Convert intensity between units",
      "topics": [
        "ir_convert_intensity"
      ]
    },
    {
      "page": "ir_default_theme",
      "title": "Default isoreader2 plotting theme",
      "topics": [
        "ir_default_theme"
      ]
    },
    {
      "page": "ir_examples_folder",
      "title": "Bundled example files",
      "topics": [
        "ir_copy_examples",
        "ir_examples_folder"
      ]
    },
    {
      "page": "ir_export_to_excel",
      "title": "Export data to Excel",
      "topics": [
        "ir_export_to_excel"
      ]
    },
    {
      "page": "ir_extract_isofiles",
      "title": "run the isoextract executable on a vector of file paths this is usually not called directly",
      "topics": [
        "ir_extract_isofiles",
        "ir_get_isoextract_version"
      ]
    },
    {
      "page": "ir_filter_for",
      "title": "Filter isofiles by measurement type",
      "topics": [
        "ir_filter_for",
        "ir_filter_for_continuous_flow",
        "ir_filter_for_dual_inlet",
        "ir_filter_for_scans"
      ]
    },
    {
      "page": "ir_find_isofiles",
      "title": "Find isodat files",
      "topics": [
        "ir_find_continuous_flow",
        "ir_find_dual_inlet",
        "ir_find_isofiles",
        "ir_find_scans"
      ]
    },
    {
      "page": "ir_generate_tibble",
      "title": "Generate the tibble used by the plotting functions",
      "topics": [
        "ir_generate_cycles_tibble",
        "ir_generate_scans_tibble",
        "ir_generate_tibble",
        "ir_generate_traces_tibble"
      ]
    },
    {
      "page": "ir_get_data",
      "title": "Get data frame from aggregated data",
      "topics": [
        "ir_get_cycles",
        "ir_get_data",
        "ir_get_metadata",
        "ir_get_resistors",
        "ir_get_scans",
        "ir_get_traces",
        "ir_get_vendor_data_table"
      ]
    },
    {
      "page": "problems",
      "title": "Retrieve parsing problems",
      "topics": [
        "ir_get_problems",
        "ir_show_problems"
      ]
    },
    {
      "page": "ir_get_supported_file_types",
      "title": "Get supported file types",
      "topics": [
        "ir_get_supported_file_types"
      ]
    },
    {
      "page": "ir_isofiles_storage",
      "title": "Save and load isofiles",
      "topics": [
        "ir_isofiles_storage",
        "ir_load_isofiles",
        "ir_save_isofiles"
      ]
    },
    {
      "page": "ir_metadata",
      "title": "Filter, mutate, or join the metadata of isofiles",
      "topics": [
        "ir_filter_metadata",
        "ir_join_metadata",
        "ir_metadata",
        "ir_mutate_metadata"
      ]
    },
    {
      "page": "ir_options",
      "title": "Package options",
      "topics": [
        "get_pkg_options",
        "ir_get_option",
        "ir_get_options",
        "ir_options"
      ]
    },
    {
      "page": "ir_plot_continuous_flow",
      "title": "Plot continuous flow data",
      "topics": [
        "ir_plot_continuous_flow"
      ]
    },
    {
      "page": "ir_plot_dual_inlet",
      "title": "Plot dual inlet cycle data",
      "topics": [
        "ir_plot_dual_inlet"
      ]
    },
    {
      "page": "ir_plot_scans",
      "title": "Plot scan data",
      "topics": [
        "ir_plot_scans"
      ]
    },
    {
      "page": "ir_read_isofiles",
      "title": "Read isotope data files",
      "topics": [
        "ir_read_isofiles"
      ]
    },
    {
      "page": "ir_aggregator",
      "title": "Dynamic data aggregator",
      "topics": [
        "ir_add_to_aggregator",
        "ir_get_aggregator",
        "ir_register_aggregator",
        "ir_start_aggregator"
      ]
    },
    {
      "page": "ir_storage",
      "title": "Save and load aggregated isofile data",
      "topics": [
        "ir_load_aggregated_data",
        "ir_save_aggregated_data",
        "ir_storage"
      ]
    }
  ],
  "_pkglogo": "https://github.com/isoverse/isoreader2/raw/HEAD/man/figures/logo.png",
  "_readme": "https://github.com/isoverse/isoreader2/raw/HEAD/README.md",
  "_rundeps": [
    "bit",
    "bit64",
    "cli",
    "clipr",
    "cpp11",
    "crayon",
    "dplyr",
    "evaluate",
    "fansi",
    "farver",
    "generics",
    "ggplot2",
    "glue",
    "gtable",
    "highr",
    "hms",
    "isoband",
    "knitr",
    "labeling",
    "lifecycle",
    "magrittr",
    "pillar",
    "pkgconfig",
    "prettyunits",
    "processx",
    "progress",
    "ps",
    "purrr",
    "R6",
    "RColorBrewer",
    "Rcpp",
    "RcppSimdJson",
    "readr",
    "rlang",
    "S7",
    "scales",
    "stringi",
    "stringr",
    "tibble",
    "tidyr",
    "tidyselect",
    "tzdb",
    "utf8",
    "vctrs",
    "viridisLite",
    "vroom",
    "withr",
    "xfun",
    "yaml"
  ],
  "_vignettes": [
    {
      "source": "functionality_guide.Rmd",
      "filename": "functionality_guide.html",
      "title": "Functionality Guide",
      "engine": "knitr::rmarkdown",
      "headings": [
        "Reading isotope files",
        "ir_find_isofiles() *",
        "ir_read_isofiles() *",
        "bonus combine collections with c()",
        "bonus ir_save_isofiles() / ir_load_isofiles()",
        "Aggregating data",
        "ir_aggregate_isofiles() *",
        "bonus intensity units",
        "bonus ir_get_aggregator()",
        "bonus ir_register_aggregator()",
        "bonus ir_get_problems() / ir_show_problems()",
        "Accessing the data",
        "ir_get_data()",
        "shortcuts ir_get_metadata() / ir_get_traces() / ...",
        "bonus ir_get_vendor_data_table()",
        "ir_filter_metadata() / ir_mutate_metadata() / ir_join_metadata()",
        "bonus ir_filter_for_continuous_flow() / ir_filter_for_dual_inlet() / ir_filter_for_scans()",
        "bonus ir_save_aggregated_data() / ir_load_aggregated_data()",
        "Calculating ratios",
        "ir_calculate_ratios()",
        "bonus base mass, additive offsets, and normalization",
        "Visualizing data",
        "ir_plot_continuous_flow()",
        "bonus ir_generate_traces_tibble() / ir_generate_cycles_tibble() / ir_generate_scans_tibble()",
        "ir_plot_dual_inlet()",
        "ir_plot_scans()",
        "Exporting data",
        "ir_export_to_excel()",
        "Package options",
        "bonus ir_options() / ir_get_option()"
      ],
      "created": "2026-06-09 19:34:04",
      "modified": "2026-07-03 17:14:51",
      "commits": 8
    }
  ],
  "_score": 4.544068044350276,
  "_indexed": true,
  "_nocasepkg": "isoreader2",
  "_universes": [
    "isoverse",
    "sebkopf"
  ],
  "_binaries": [
    {
      "r": "4.7.0",
      "os": "linux",
      "version": "0.6.1",
      "date": "2026-07-11T08:04:03.000Z",
      "distro": "resolute",
      "commit": "85b21333d60054664f3b3876ad0a72fa91941b58",
      "fileid": "https://r2.ropensci.org/ba1fe4b1f32f99b01e1e9afc70be609875470288d77c32aebf4eabd12027d120",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/isoverse/actions/runs/29145352900"
    },
    {
      "r": "4.6.1",
      "os": "linux",
      "version": "0.6.1",
      "date": "2026-07-11T08:03:55.000Z",
      "distro": "resolute",
      "commit": "85b21333d60054664f3b3876ad0a72fa91941b58",
      "fileid": "https://r2.ropensci.org/8096806d82cbd5522cef555ef2f7592a9b296c5114fbb8c5a8913bc6bfd5f3c9",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/isoverse/actions/runs/29145352900"
    },
    {
      "r": "4.5.3",
      "os": "mac",
      "version": "0.6.1",
      "date": "2026-07-11T08:03:19.000Z",
      "commit": "85b21333d60054664f3b3876ad0a72fa91941b58",
      "fileid": "https://r2.ropensci.org/948b5c3f12893bae709f5b706eceaed3ac1574f4f7843ee0248358f375cca984",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/isoverse/actions/runs/29145352900"
    },
    {
      "r": "4.6.1",
      "os": "mac",
      "version": "0.6.1",
      "date": "2026-07-11T08:03:13.000Z",
      "commit": "85b21333d60054664f3b3876ad0a72fa91941b58",
      "fileid": "https://r2.ropensci.org/ddbf71c75b9f274c2f1f17d8b24e3be35db2707ec337a6c74aa1be6860225aff",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/isoverse/actions/runs/29145352900"
    },
    {
      "r": "4.6.0",
      "os": "wasm",
      "version": "0.6.1",
      "date": "2026-07-11T08:03:54.000Z",
      "commit": "85b21333d60054664f3b3876ad0a72fa91941b58",
      "fileid": "https://r2.ropensci.org/464c7d0c34deef135d7cca0b21a42d9cefd9c5081203ffa6bcb50c8501f4dbdb",
      "status": "success",
      "buildurl": "https://github.com/r-universe/isoverse/actions/runs/29145352900"
    },
    {
      "r": "4.7.0",
      "os": "win",
      "version": "0.6.1",
      "date": "2026-07-11T08:02:36.000Z",
      "commit": "85b21333d60054664f3b3876ad0a72fa91941b58",
      "fileid": "https://r2.ropensci.org/89055bed5e34543ebea6451558bc659bc47e9471c1f7a2ce85996c30e10f5834",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/isoverse/actions/runs/29145352900"
    },
    {
      "r": "4.5.3",
      "os": "win",
      "version": "0.6.1",
      "date": "2026-07-11T08:02:35.000Z",
      "commit": "85b21333d60054664f3b3876ad0a72fa91941b58",
      "fileid": "https://r2.ropensci.org/a5278844bc11f30bdcc9c1601e9829b4eeceb6fbe5008fbe317168957c52e5d5",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/isoverse/actions/runs/29145352900"
    },
    {
      "r": "4.6.1",
      "os": "win",
      "version": "0.6.1",
      "date": "2026-07-11T08:02:30.000Z",
      "commit": "85b21333d60054664f3b3876ad0a72fa91941b58",
      "fileid": "https://r2.ropensci.org/2154357c010efe62ddbe330dc77f2f744a481c78228f80476e3e48bdfd197907",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/isoverse/actions/runs/29145352900"
    }
  ]
}