{
  "_id": "6a61499d1fed6d528131eb1d",
  "Package": "BioMonTools",
  "Type": "Package",
  "Title": "Biomonitoring and Bioassessment Calculations",
  "Version": "1.3.1",
  "Authors@R": "c(\nperson(\"Erik W.\", \"Leppo\",\nemail=\"Erik.Leppo@tetratech.com\",\nrole = c(\"aut\", \"cre\"),\ncomment = c(ORCID = \"0000-0001-8026-7474\")),\nperson(\"Jen\", \"Stamp\", role = \"ctb\"),\nperson(\"John\", \"van Sickles\", role = \"ctb\"),\nperson(\"Ben\", \"Block\", role = \"ctb\")\n)",
  "Maintainer": "Erik W. Leppo <Erik.Leppo@tetratech.com>",
  "Description": "An aid for manipulating data associated with biomonitoring\nand bioassessment. Calculations include metric calculation,\nmarking of excluded taxa, subsampling, and multimetric index\ncalculation.  Targeted communities are benthic\nmacroinvertebrates, fish, periphyton, and coral.  As described\nin the Revised Rapid Bioassessment Protocols (Barbour et al.\n1999)\n<https://archive.epa.gov/water/archive/web/html/index-14.html>.",
  "License": "MIT + file LICENSE",
  "Encoding": "UTF-8",
  "LazyData": "true",
  "URL": "https://github.com/leppott/BioMonTools",
  "BugReports": "https://github.com/leppott/BioMonTools/issues",
  "VignetteBuilder": "knitr",
  "Config/roxygen2/version": "8.0.0",
  "NeedsCompilation": "no",
  "Packaged": {
    "Date": "2026-07-22 22:47:40 UTC",
    "User": "root"
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  "Author": "Erik W. Leppo [aut, cre] (ORCID:\n<https://orcid.org/0000-0001-8026-7474>), Jen Stamp [ctb], John\nvan Sickles [ctb], Ben Block [ctb]",
  "Repository": "https://cran.r-universe.dev",
  "Date/Publication": "2026-07-22 19:50:02 UTC",
  "RemoteUrl": "https://github.com/cran/BioMonTools",
  "RemoteRef": "HEAD",
  "RemoteSha": "8869b8d544ac38e30ed8ecbff34904dcf043e9c8",
  "_user": "cran",
  "_type": "src",
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  "_expires": "2026-10-30T22:52:11.000Z",
  "_created": "2026-07-22T22:47:40.000Z",
  "_published": "2026-07-22T22:52:13.774Z",
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  "_upstream": "https://github.com/cran/BioMonTools",
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    "author": "Erik W. Leppo <Erik.Leppo@tetratech.com>",
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    "description": "Unofficial read-only mirror of all CRAN R packages"
  },
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    "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/BioMonTools"
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  "_devurl": "https://github.com/leppott/biomontools",
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  "_rbuild": "4.6.1",
  "_assets": [
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    "extra/contents.json",
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  "_exports": [
    "assign_IndexClass",
    "MapTaxaObs",
    "markExcluded",
    "metric.scores",
    "metric.stats",
    "metric.stats2",
    "metric.values",
    "metric.values.algae",
    "metric.values.bugs",
    "metric.values.coral",
    "metric.values.fish",
    "metvalgrpxl",
    "qc_taxa",
    "qc_taxa_match_official",
    "qc_taxa_names_proof",
    "qc_taxa_phylo",
    "qc_taxa_values_character",
    "qc_taxa_values_logical",
    "qc_taxa_values_numeric",
    "qc.checks",
    "rarify",
    "taxa_translate"
  ],
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      "name": "data_algae_names_official",
      "title": "Algae Taxa Names, Official",
      "object": "data_algae_names_official",
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        "tbl_df",
        "tbl",
        "data.frame"
      ],
      "fields": [
        "Taxon",
        "Issues",
        "Number of occurrences",
        "modified BCG",
        "OTU_BCG",
        "Notes",
        "OTU_Carlisle",
        "OTU_Mertens"
      ],
      "rows": 3271,
      "table": true,
      "tojson": true
    },
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      "name": "data_algae_names_user",
      "title": "Algae Taxa Names, User",
      "object": "data_algae_names_user",
      "class": [
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        "tbl",
        "data.frame"
      ],
      "fields": [
        "Taxon"
      ],
      "rows": 3271,
      "table": true,
      "tojson": true
    },
    {
      "name": "data_benthos_MBSS",
      "title": "Benthic macroinvertebrate taxa data; MBSS",
      "object": "data_benthos_MBSS",
      "class": [
        "data.frame"
      ],
      "fields": [
        "INDEX_NAME",
        "SAMPLEID",
        "DATE",
        "TAXAID",
        "N_TAXA",
        "N_GRIDS",
        "EXCLUDE",
        "INDEX_CLASS",
        "Phylum",
        "Class",
        "Order",
        "Family",
        "Genus",
        "Other_Taxa",
        "Tribe",
        "FFG",
        "FAM_TV",
        "Habit",
        "TOLVAL",
        "TOLVAL2",
        "UFC",
        "UFC_Comment",
        "SUBPHYLUM",
        "SUBCLASS",
        "INFRAORDER",
        "SUBFAMILY",
        "LIFE_CYCLE",
        "BCG_ATTR",
        "THERMAL_INDICATOR",
        "LONGLIVED",
        "NOTEWORTHY",
        "FFG2",
        "HABITAT",
        "ELEVATION_ATTR",
        "GRADIENT_ATTR",
        "WSAREA_ATTR",
        "HABSTRUCT",
        "BCG_ATTR2",
        "NONTARGET",
        "AIRBREATHER",
        "SAMP_AREA_M2",
        "DENSITY_M2"
      ],
      "rows": 5066,
      "table": true,
      "tojson": true
    },
    {
      "name": "data_benthos_PacNW",
      "title": "Benthic macroinvertebrate taxa data; Pacific Northwest",
      "object": "data_benthos_PacNW",
      "class": [
        "data.frame"
      ],
      "fields": [
        "INDEX_NAME",
        "INDEX_CLASS",
        "SampleID",
        "TaxaID",
        "N_TAXA",
        "Exclude",
        "NonTarget",
        "Phylum",
        "Class",
        "Order",
        "Family",
        "Subfamily",
        "Tribe",
        "Genus",
        "BCG_Attr",
        "Thermal_Indicator",
        "FFG",
        "Clinger",
        "LongLived",
        "Noteworthy",
        "Habitat",
        "SubPhylum",
        "InfraOrder",
        "Habit",
        "Life_Cycle",
        "TolVal",
        "FFG2",
        "TolVal2",
        "UFC",
        "UFC_Comment",
        "SubClass",
        "Elevation_Attr",
        "Gradient_Attr",
        "WSArea_Attr",
        "HabStruct",
        "BCG_Attr2",
        "AirBreather",
        "SAMP_AREA_M2",
        "DENSITY_M2"
      ],
      "rows": 598,
      "table": true,
      "tojson": true
    },
    {
      "name": "data_bio2rarify",
      "title": "rarify example data",
      "object": "data_bio2rarify",
      "class": [
        "data.frame"
      ],
      "fields": [
        "SampleID",
        "TaxaID",
        "N_Taxa"
      ],
      "rows": 350,
      "table": true,
      "tojson": true
    },
    {
      "name": "data_coral_bcg_metric_dev",
      "title": "Coral taxa data; Florida BCG.",
      "object": "data_coral_bcg_metric_dev",
      "class": [
        "data.frame"
      ],
      "fields": [
        "DataSource",
        "SampleID",
        "TotTranLngth_m",
        "SampDate",
        "TAXAID",
        "CommonName",
        "Juvenile",
        "DiamMax_cm",
        "DiamPerp_cm",
        "Height_cm",
        "TotMort_pct",
        "BCG_ATTR",
        "Weedy",
        "LRBC",
        "MorphConvFact",
        "Phylum",
        "Class",
        "SubClass",
        "Order",
        "Family",
        "Genus",
        "SubGenus",
        "Species",
        "INDEX_NAME",
        "INDEX_CLASS"
      ],
      "rows": 2138,
      "table": true,
      "tojson": true
    },
    {
      "name": "data_coral_bcg_metric_qc",
      "title": "Coral metric value data; Florida BCG.",
      "object": "data_coral_bcg_metric_qc",
      "class": [
        "data.frame"
      ],
      "fields": [
        "SAMPLEID",
        "INDEX_NAME",
        "INDEX_CLASS",
        "transect_area_m2",
        "ncol_total",
        "lcol_total",
        "nt_total",
        "ncol_Acropora",
        "ncol_AcroOrbi_m2",
        "pcol_Acropora",
        "nt_BCG_att123",
        "nt_BCG_att1234",
        "nt_BCG_att5",
        "pt_BCG_att5",
        "LCSA3D_samp_m2",
        "LCSA3D_BCG_att1234_m2",
        "LCSA3D_LRBC_m2",
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      "table": true,
      "tojson": true
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    {
      "name": "data_diatom_mmi_dev",
      "title": "Diatom taxa data; Indiana DEM",
      "object": "data_diatom_mmi_dev",
      "class": [
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        "DIATOM_ISA",
        "DIAT_CL",
        "POLL_TOL",
        "BEN_SES",
        "DIATAS_TP",
        "DIATAS_TN",
        "DIAT_COND",
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        "PHYLUM",
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        "SALINITY_MERTENS",
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      "table": true,
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      "title": "Diatom metric value data; Indiana DEM",
      "object": "data_diatom_mmi_qc",
      "class": [
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      ],
      "fields": [
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        "INDEX_NAME",
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        "nt_LOW_N",
        "nt_HIGH_N",
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        "nt_HIGH_P",
        "nt_BC_1",
        "nt_BC_2",
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