{
  "_id": "6a1edc5fb401979e7340fc90",
  "Package": "respR",
  "Type": "Package",
  "Title": "Import, Process, Analyse, and Calculate Rates from Respirometry\nData",
  "Date": "2025-10-09",
  "Version": "2.3.4",
  "Maintainer": "Nicholas Carey <nicholascarey@gmail.com>",
  "Authors@R": "c(\nperson(given = \"Nicholas\",\nfamily = \"Carey\",\nrole = c(\"aut\", \"cre\"),\nemail = \"nicholascarey@gmail.com\"),\nperson(given = \"Januar\",\nfamily = \"Harianto\",\nrole = c(\"aut\"),\nemail = \"januar.harianto@sydney.edu.au\"))",
  "Description": "Provides a structural, reproducible workflow for the\nprocessing and analysis of respirometry data. It contains\nanalytical functions and utilities for working with oxygen\ntime-series to determine respiration or oxygen production\nrates, and to make it easier to report and share analyses. See\nHarianto et al. 2019 <doi:10.1111/2041-210X.13162>.",
  "URL": "https://github.com/januarharianto/respr,\nhttps://januarharianto.github.io/respR/,\nhttps://doi.org/10.1111/2041-210X.13162",
  "License": "GPL-3",
  "Encoding": "UTF-8",
  "LazyData": "true",
  "RoxygenNote": "7.3.3",
  "Roxygen": "list(markdown = TRUE)",
  "Config/pak/sysreqs": "make libicu-dev libxml2-dev",
  "Repository": "https://januarharianto.r-universe.dev",
  "Date/Publication": "2025-12-21 12:45:36 UTC",
  "RemoteUrl": "https://github.com/januarharianto/respr",
  "RemoteRef": "HEAD",
  "RemoteSha": "bc34824e120759a12500041d1ada138b768662f1",
  "NeedsCompilation": "no",
  "Packaged": {
    "Date": "2026-05-20 08:32:04 UTC",
    "User": "root"
  },
  "Author": "Nicholas Carey [aut, cre],\nJanuar Harianto [aut]",
  "MD5sum": "2a363856a7f129a7c0a0533d2dff27f9",
  "_user": "januarharianto",
  "_type": "src",
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  "_sha256": "245446dbf8ef1f694da1fcb7362a5848afb1e9cda66151e2d879d84b06d74e99",
  "_created": "2026-05-20T08:32:04.000Z",
  "_published": "2026-06-02T13:36:31.660Z",
  "_distro": "noble",
  "_jobs": [
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  "_buildurl": "https://github.com/r-universe/januarharianto/actions/runs/26150868269",
  "_status": "success",
  "_host": "GitHub-Actions",
  "_upstream": "https://github.com/januarharianto/respr",
  "_commit": {
    "id": "bc34824e120759a12500041d1ada138b768662f1",
    "author": "Nicholas Carey <nicholascarey@gmail.com>",
    "committer": "GitHub <noreply@github.com>",
    "message": "Merge pull request #216 from januarharianto/develop\n\nDevelop",
    "time": 1766321136
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    "email": "nicholascarey@gmail.com",
    "login": "nicholascarey",
    "description": "Biologist working in the Marine Directorate of the Scottish Government. Formerly at Stanford University and University of Sydney. ",
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    },
    {
      "package": "dplyr",
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    },
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      "package": "glue",
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    },
    {
      "package": "graphics",
      "role": "Imports"
    },
    {
      "package": "grDevices",
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    {
      "package": "lubridate",
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    {
      "package": "magrittr",
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    },
    {
      "package": "marelac",
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    },
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      "package": "purrr",
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    },
    {
      "package": "roll",
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    },
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    },
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      "package": "stats",
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    },
    {
      "package": "stringr",
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    },
    {
      "package": "utils",
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    },
    {
      "package": "xml2",
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    },
    {
      "package": "respirometry",
      "role": "Suggests"
    },
    {
      "package": "testthat",
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    },
    {
      "package": "covr",
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  "_owner": "januarharianto",
  "_selfowned": true,
  "_usedby": 0,
  "_updates": [
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      "week": "2025-41",
      "n": 2
    },
    {
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  ],
  "_tags": [],
  "_topics": [
    "respirometry",
    "rstudio"
  ],
  "_stars": 12,
  "_contributors": [
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  ],
  "_userbio": {
    "uuid": 19887340,
    "type": "user",
    "name": "Januar Harianto",
    "description": "Data Scientist, Lecturer at the University of Sydney"
  },
  "_downloads": {
    "count": 342,
    "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/respR"
  },
  "_devurl": "https://github.com/januarharianto/respr",
  "_pkgdown": "https://januarharianto.github.io/respR/",
  "_searchresults": 124,
  "_rbuild": "4.6.0",
  "_assets": [
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    "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/respR.html",
    "manual.pdf"
  ],
  "_homeurl": "https://github.com/januarharianto/respr",
  "_realowner": "januarharianto",
  "_cranurl": true,
  "_releases": [
    {
      "version": "2.0.0",
      "date": "2022-02-16"
    },
    {
      "version": "2.0.1",
      "date": "2022-03-14"
    },
    {
      "version": "2.0.2",
      "date": "2022-03-23"
    },
    {
      "version": "2.1.0",
      "date": "2022-12-08"
    },
    {
      "version": "2.2.0",
      "date": "2023-01-06"
    },
    {
      "version": "2.3.0",
      "date": "2023-06-05"
    },
    {
      "version": "2.3.1",
      "date": "2023-06-29"
    },
    {
      "version": "2.3.2",
      "date": "2023-11-16"
    },
    {
      "version": "2.3.3",
      "date": "2024-05-10"
    },
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      "version": "2.3.4",
      "date": "2025-10-10"
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  ],
  "_exports": [
    "%>%",
    "adjust_rate",
    "adjust_rate.ft",
    "auto_rate",
    "auto_rate.int",
    "calc_rate",
    "calc_rate.bg",
    "calc_rate.ft",
    "calc_rate.int",
    "convert_DO",
    "convert_MR",
    "convert_rate",
    "convert_rate.ft",
    "convert_val",
    "format_time",
    "import_file",
    "inspect",
    "inspect.ft",
    "oxy_crit",
    "select",
    "select_rate",
    "select_rate.ft",
    "sim_data",
    "subsample",
    "subset_data",
    "test_lin",
    "unit_args"
  ],
  "_datasets": [
    {
      "name": "algae.rd",
      "title": "Oxygen production respirometry data",
      "object": "algae.rd",
      "class": [
        "data.table",
        "data.frame"
      ],
      "fields": [
        "Time",
        "Oxygen"
      ],
      "rows": 1200,
      "table": true,
      "tojson": true
    },
    {
      "name": "background_con.rd",
      "title": "Background respirometry data (constant)",
      "object": "background_con.rd",
      "class": [
        "data.table",
        "data.frame"
      ],
      "fields": [
        "Time",
        "Oxygen"
      ],
      "rows": 20664,
      "table": true,
      "tojson": true
    },
    {
      "name": "background_exp.rd",
      "title": "Background respirometry data (exponential)",
      "object": "background_exp.rd",
      "class": [
        "data.table",
        "data.frame"
      ],
      "fields": [
        "Time",
        "Oxygen"
      ],
      "rows": 20664,
      "table": true,
      "tojson": true
    },
    {
      "name": "background_lin.rd",
      "title": "Background respirometry data (linear)",
      "object": "background_lin.rd",
      "class": [
        "data.table",
        "data.frame"
      ],
      "fields": [
        "Time",
        "Oxygen"
      ],
      "rows": 20664,
      "table": true,
      "tojson": true
    },
    {
      "name": "flowthrough_mult.rd",
      "title": "Multi-column flowthrough respirometry data",
      "object": "flowthrough_mult.rd",
      "class": [
        "data.table",
        "data.frame"
      ],
      "fields": [
        "num.time",
        "oxy.out.1",
        "oxy.out.2",
        "oxy.out.3",
        "oxy.out.blank",
        "oxy.in.1",
        "oxy.in.2",
        "oxy.in.3",
        "oxy.in.blank",
        "oxy.delta.1",
        "oxy.delta.2",
        "oxy.delta.3",
        "oxy.delta.blank",
        "oxy.header",
        "temperature"
      ],
      "rows": 3740,
      "table": true,
      "tojson": true
    },
    {
      "name": "flowthrough_sim.rd",
      "title": "Flowthrough respirometry data with increasing background rate",
      "object": "flowthrough_sim.rd",
      "class": [
        "data.table",
        "data.frame"
      ],
      "fields": [
        "num_time",
        "oxy.out.spec",
        "oxy.out.blank",
        "oxy.header"
      ],
      "rows": 3740,
      "table": true,
      "tojson": true
    },
    {
      "name": "flowthrough.rd",
      "title": "Flowthrough respirometry data on the chiton, _Mopalia lignosa_",
      "object": "flowthrough.rd",
      "class": [
        "data.table",
        "data.frame"
      ],
      "fields": [
        "time",
        "oxy.out",
        "oxy.in",
        "oxy.delta"
      ],
      "rows": 935,
      "table": true,
      "tojson": true
    },
    {
      "name": "intermittent.rd",
      "title": "Respirometry data of the sea urchin, _Heliocidaris Erythrogramma_",
      "object": "intermittent.rd",
      "class": [
        "data.table",
        "data.frame"
      ],
      "fields": [
        "Time",
        "O2"
      ],
      "rows": 4831,
      "table": true,
      "tojson": true
    },
    {
      "name": "sardine.rd",
      "title": "Respirometry data of the sardine, _Sardinops sagax_",
      "object": "sardine.rd",
      "class": [
        "data.table",
        "data.frame"
      ],
      "fields": [
        "Time",
        "Oxygen",
        "Temperature"
      ],
      "rows": 7513,
      "table": true,
      "tojson": true
    },
    {
      "name": "squid.rd",
      "title": "Respirometry data of the squid, _Doryteuthis opalescens_",
      "object": "squid.rd",
      "class": [
        "data.table",
        "data.frame"
      ],
      "fields": [
        "Time",
        "Oxygen"
      ],
      "rows": 34120,
      "table": true,
      "tojson": true
    },
    {
      "name": "urchins.rd",
      "title": "Multi-column respirometry data of the sea urchin, _Heliocidaris Erythrogramma_, including background respiration",
      "object": "urchins.rd",
      "class": [
        "data.table",
        "data.frame"
      ],
      "fields": [
        "time.min",
        "a",
        "b",
        "c",
        "d",
        "e",
        "f",
        "g",
        "h",
        "i",
        "j",
        "k",
        "l",
        "m",
        "n",
        "o",
        "p",
        "b1",
        "b2"
      ],
      "rows": 271,
      "table": true,
      "tojson": true
    },
    {
      "name": "zeb_intermittent.rd",
      "title": "Respirometry data of a zebrafish, _Danio rerio_",
      "object": "zeb_intermittent.rd",
      "class": [
        "data.table",
        "data.frame"
      ],
      "fields": [
        "Time",
        "Oxygen"
      ],
      "rows": 79251,
      "table": true,
      "tojson": true
    }
  ],
  "_help": [
    {
      "page": "adjust_rate",
      "title": "Adjust rates to account for background respiration or oxygen flux.",
      "topics": [
        "adjust_rate"
      ]
    },
    {
      "page": "adjust_rate.ft",
      "title": "Adjust rates in flowthrough respirometry to account for background respiration or oxygen flux.",
      "topics": [
        "adjust_rate.ft"
      ]
    },
    {
      "page": "algae.rd",
      "title": "Oxygen production respirometry data",
      "topics": [
        "algae.rd"
      ]
    },
    {
      "page": "auto_rate",
      "title": "Automatically determine most linear, highest, lowest and rolling oxygen uptake or production rates",
      "topics": [
        "auto_rate"
      ]
    },
    {
      "page": "auto_rate.int",
      "title": "Run auto_rate on multiple replicates in intermittent-flow respirometry data",
      "topics": [
        "auto_rate.int"
      ]
    },
    {
      "page": "background_con.rd",
      "title": "Background respirometry data (constant)",
      "topics": [
        "background_con.rd"
      ]
    },
    {
      "page": "background_exp.rd",
      "title": "Background respirometry data (exponential)",
      "topics": [
        "background_exp.rd"
      ]
    },
    {
      "page": "background_lin.rd",
      "title": "Background respirometry data (linear)",
      "topics": [
        "background_lin.rd"
      ]
    },
    {
      "page": "calc_rate",
      "title": "Calculate rate of change in oxygen over time",
      "topics": [
        "calc_rate"
      ]
    },
    {
      "page": "calc_rate.bg",
      "title": "Calculate background oxygen uptake or input rates",
      "topics": [
        "calc_rate.bg"
      ]
    },
    {
      "page": "calc_rate.ft",
      "title": "Calculate rate of change in oxygen from flowthrough respirometry data",
      "topics": [
        "calc_rate.ft"
      ]
    },
    {
      "page": "calc_rate.int",
      "title": "Extract rates from multiple replicates in intermittent-flow respirometry data",
      "topics": [
        "calc_rate.int"
      ]
    },
    {
      "page": "convert_DO",
      "title": "Convert between units of dissolved oxygen",
      "topics": [
        "convert_DO"
      ]
    },
    {
      "page": "convert_MR",
      "title": "Convert between units of absolute, mass-specific, or area-specific metabolic rates",
      "topics": [
        "convert_MR"
      ]
    },
    {
      "page": "convert_rate",
      "title": "Convert a unitless oxygen rate value to absolute, mass-specific or area-specific rate",
      "topics": [
        "convert_rate"
      ]
    },
    {
      "page": "convert_rate.ft",
      "title": "Convert a unitless oxygen rate value from flowthrough respirometry to absolute, mass-specific or area-specific rates",
      "topics": [
        "convert_rate.ft"
      ]
    },
    {
      "page": "convert_val",
      "title": "Convert values of temperature, volume, mass, area, and atmospheric pressure to different units",
      "topics": [
        "convert_val"
      ]
    },
    {
      "page": "flowthrough_mult.rd",
      "title": "Multi-column flowthrough respirometry data",
      "topics": [
        "flowthrough_mult.rd"
      ]
    },
    {
      "page": "flowthrough_sim.rd",
      "title": "Flowthrough respirometry data with increasing background rate",
      "topics": [
        "flowthrough_sim.rd"
      ]
    },
    {
      "page": "flowthrough.rd",
      "title": "Flowthrough respirometry data on the chiton, _Mopalia lignosa_",
      "topics": [
        "flowthrough.rd"
      ]
    },
    {
      "page": "format_time",
      "title": "Parse date-time data to numeric time for use in respR functions",
      "topics": [
        "format_time"
      ]
    },
    {
      "page": "import_file",
      "title": "Import respirometry system raw data files (DEPRECATED)",
      "topics": [
        "import_file"
      ]
    },
    {
      "page": "inspect",
      "title": "Explore and visualise respirometry data and check for common errors",
      "topics": [
        "inspect"
      ]
    },
    {
      "page": "inspect.ft",
      "title": "Explore and visualise flowthrough respirometry data and check for errors",
      "topics": [
        "inspect.ft"
      ]
    },
    {
      "page": "intermittent.rd",
      "title": "Respirometry data of the sea urchin, _Heliocidaris Erythrogramma_",
      "topics": [
        "intermittent.rd"
      ]
    },
    {
      "page": "oxy_crit",
      "title": "Calculate critical oxygen values, such as PCrit",
      "topics": [
        "oxy_crit"
      ]
    },
    {
      "page": "sardine.rd",
      "title": "Respirometry data of the sardine, _Sardinops sagax_",
      "topics": [
        "sardine.rd"
      ]
    },
    {
      "page": "select_rate",
      "title": "Select rate results based on a range of criteria",
      "topics": [
        "select_rate",
        "select_rate.ft"
      ]
    },
    {
      "page": "squid.rd",
      "title": "Respirometry data of the squid, _Doryteuthis opalescens_",
      "topics": [
        "squid.rd"
      ]
    },
    {
      "page": "subsample",
      "title": "Subsample a data frame object",
      "topics": [
        "subsample"
      ]
    },
    {
      "page": "subset_data",
      "title": "Subset a 'data.frame', 'inspect', or 'inspect.ft' object",
      "topics": [
        "subset_data"
      ]
    },
    {
      "page": "unit_args",
      "title": "Print examples of unit inputs",
      "topics": [
        "unit_args"
      ]
    },
    {
      "page": "urchins.rd",
      "title": "Multi-column respirometry data of the sea urchin, _Heliocidaris Erythrogramma_, including background respiration",
      "topics": [
        "urchins.rd"
      ]
    },
    {
      "page": "zeb_intermittent.rd",
      "title": "Respirometry data of a zebrafish, _Danio rerio_",
      "topics": [
        "zeb_intermittent.rd"
      ]
    }
  ],
  "_pkglogo": "https://github.com/januarharianto/respr/raw/HEAD/man/figures/logo.png",
  "_readme": "https://github.com/januarharianto/respr/raw/HEAD/README.md",
  "_rundeps": [
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    "cpp11",
    "data.table",
    "dplyr",
    "generics",
    "glue",
    "gsw",
    "lattice",
    "lifecycle",
    "lubridate",
    "magrittr",
    "marelac",
    "MASS",
    "nlme",
    "oce",
    "pillar",
    "pkgconfig",
    "purrr",
    "R6",
    "Rcpp",
    "RcppArmadillo",
    "RcppParallel",
    "rlang",
    "roll",
    "seacarb",
    "segmented",
    "shape",
    "SolveSAPHE",
    "stringi",
    "stringr",
    "tibble",
    "tidyselect",
    "timechange",
    "utf8",
    "vctrs",
    "withr",
    "xml2"
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  "_score": 5.473632926873842,
  "_indexed": true,
  "_nocasepkg": "respr",
  "_universes": [
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    "nicholascarey"
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  "_binaries": [
    {
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