{ "_id": "6ab8f8da99f7aa8c6aa39224", "Package": "BCGcalc", "Type": "Package", "Title": "Biological Condition Gradient, Calculator", "Version": "2.3.1.9007", "Authors@R": "c(\nperson(\"Erik W.\", \"Leppo\", email=\"Erik.Leppo@tetratech.com\", role=c(\"aut\",\"cre\")),\nperson(\"Jen\", \"Stamp\", email=\"Jen.Stamp@tetratech.com\", role=\"ctb\"),\nperson(\"Matt\", \"Hedin\", email=\"Matt.Hedin@tetratech.com\", role=\"ctb\"),\nperson(\"Ben\", \"Block\", email=\"Ben.Block@tetratech.com\", role=\"ctb\"))", "Maintainer": "Erik W. Leppo ", "Description": "Functions to calculate Biological Condition Gradient (BCG)\nusing input files with one row per sample with metric values\nand site classes as columns. A second file with the BCG Rules\n(example included) to define the memberships is also needed.\nThe three main functions convert metric scores to metric\nmemberships following fuzzy set BCG Rules\n(BCG.Level.Assignment), combine metric memberships to level\nmemberships according to BCG Rules (BCG.Level.Membership), and\nthen assign a BCG primary and secondary level based on level\nmemberships (BCG.Level.Assignment). Originally developed as a\npackage for use with BCG for Puget Lowland/Willamette Valley\nbut has been further enhanced for use with multiple communities\n(benthic macroinvertebrates, fish, periphyton, or coral) and\ndifferent rule sets. Oregon and Washington reference - \"Stamp,\nJ. and J. Gerritsen. 2018. Calibration of the Biological\nCondition Gradient (BCG) for Macroinvertebrate Assemblages in\nPuget Lowland/Willamette Valley Freshwater Wadeable Streams.\nPrepared by Tetra Tech for the US EPA Office of Water, Office\nof Science and Technology and US EPA Region 10.\" BCG process\ndocumentation - \"USEPA. 2016. A Practitioner’s Guide to the\nBiological Condition Gradient - A Framework to Describe\nIncremental Change in Aquatic Ecosystems. EPA 842-R-16-001.\nOffice of Science and Technology, Washington, DC 20460.\"", "License": "MIT + file LICENSE", "Encoding": "UTF-8", "LazyData": "true", "URL": "https://github.com/leppott/BCGcalc", "BugReports": "https://github.com/leppott/BCGcalc/issues", "VignetteBuilder": "knitr", "Config/testthat/edition": "3", "Config/roxygen2/version": "8.1.0", "Config/pak/sysreqs": "libicu-dev", "Repository": "https://leppott.r-universe.dev", "Date/Publication": "2026-08-28 18:14:33 UTC", "RemoteUrl": "https://github.com/leppott/bcgcalc", "RemoteRef": "HEAD", "RemoteSha": "922dd1d7d8d9e8ff477836e888308034e904d114", "NeedsCompilation": "no", "Packaged": { "Date": "2026-09-27 11:03:25 UTC", "User": "root" }, "Author": "Erik W. Leppo [aut, cre],\nJen Stamp [ctb],\nMatt Hedin [ctb],\nBen Block [ctb]", "_user": "leppott", "_type": "src", "_file": "BCGcalc_2.3.1.9007.tar.gz", "_fileid": "https://r2.ropensci.org/2110658300aa1b1e80f719570993d360a9eff20026346197b4a862826bd7aeae", "_filesize": 2613582, "_sha256": "2110658300aa1b1e80f719570993d360a9eff20026346197b4a862826bd7aeae", "_expires": "2027-01-05T11:07:04.000Z", "_created": "2026-09-27T11:03:25.000Z", "_published": "2026-09-27T11:07:06.213Z", "_jobs": [ { "job": 108606588640, "time": 171, "config": "linux-devel-x86_64", "r": "4.7.0", "check": "OK", "artifact": "10930685604" }, { "job": 108606588679, "time": 174, "config": "linux-release-x86_64", "r": "4.6.1", "check": "OK", "artifact": "10930750876" }, { "job": 108606588615, "time": 88, "config": "macos-oldrel-arm64", "r": "4.5.3", "check": "OK", "artifact": "10929739255" }, { "job": 108606588683, "time": 107, "config": "macos-release-arm64", "r": "4.6.1", "check": "OK", "artifact": "10929639852" }, { "job": 108605780416, "time": 318, "config": "source", "r": "4.6.1", "check": "OK", "artifact": "10930416685" }, { "job": 108606588617, "time": 139, "config": "wasm-release", "r": "4.6.0", "check": "OK", "artifact": "10930116689" }, { "job": 108606588670, "time": 110, "config": "windows-devel-x86_64", "r": "4.7.0", "check": "OK", "artifact": "10929958053" }, { "job": 108606588666, "time": 100, "config": "windows-oldrel-x86_64", "r": "4.5.3", "check": "OK", "artifact": "10929958040" }, { "job": 108606588681, "time": 102, "config": "windows-release-x86_64", "r": "4.6.1", "check": "OK", "artifact": "10930042921" } ], "_host": "GitHub-Actions", "_buildurl": "https://github.com/r-universe/leppott/actions/runs/36314210934", "_status": "success", "_upstream": "https://github.com/leppott/bcgcalc", "_commit": { "id": "922dd1d7d8d9e8ff477836e888308034e904d114", "author": "Erik Leppo ", "committer": "Erik Leppo ", "message": "v2.3.1.9007\n\n* refactor: Update GP (MO) Bug Rules, Issue #103\n + Rules.xlsx\n", "time": 1787940873 }, "_maintainer": { "name": "Erik W. Leppo", "email": "erik.leppo@tetratech.com", "login": "leppott", "description": "Environment Scientist / Data Scientist", "uuid": 24276278 }, "_distro": "resolute", "_registered": true, "_dependencies": [ { "package": "R", "version": ">= 3.5.0", "role": "Depends" }, { "package": "dplyr", "role": "Imports" }, { "package": "reshape2", "role": "Imports" }, { "package": "BioMonTools", "role": "Suggests" }, { "package": "readxl", "role": "Suggests" }, { "package": "knitr", "role": "Suggests" }, { "package": "rmarkdown", "role": "Suggests" }, { "package": "ggplot2", "role": "Suggests" }, { "package": "shiny", "role": "Suggests" }, { "package": "DT", "role": "Suggests" }, { "package": "httr", "role": "Suggests" }, { "package": "testthat", "version": ">= 3.0.0", "role": "Suggests" }, { "package": "plyr", "role": "Suggests" }, { "package": "tidyr", "role": "Suggests" }, { "package": "tibble", "role": "Suggests" }, { "package": "rioja", "role": "Suggests" }, { "package": "nhdplusTools", "role": "Suggests" }, { "package": "ComplexUpset", "role": "Suggests" }, { "package": "rlang", "role": "Suggests" } ], "_owner": "leppott", "_selfowned": true, "_usedby": 0, "_updates": [ { "week": "2025-52", "n": 1 }, { "week": "2026-21", "n": 3 }, { "week": "2026-22", "n": 2 }, { "week": "2026-23", "n": 1 }, { "week": "2026-24", "n": 1 }, { "week": "2026-26", "n": 5 }, { "week": "2026-27", "n": 1 }, { "week": "2026-28", "n": 15 }, { "week": "2026-30", "n": 2 }, { "week": "2026-31", "n": 6 }, { "week": "2026-32", "n": 4 }, { "week": "2026-33", "n": 1 }, { "week": "2026-35", "n": 1 } ], "_tags": [], "_topics": [ "bcg", "biological", "condition", "gradient", "metric" ], "_stars": 3, "_contributors": [ { "user": "leppott", "count": 369, "uuid": 24276278 }, { "user": "blocktt", "count": 7, "uuid": 68349347 }, { "user": "hedintt", "count": 1, "uuid": 84519780 } ], "_userbio": { "uuid": 24276278, "type": "user", "name": "Erik Leppo", "followers": 26, "description": "Environment Scientist / Data Scientist" }, "_downloads": { "count": 341, "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/BCGcalc" }, "_devurl": "https://github.com/leppott/bcgcalc", "_searchresults": 24, "_rbuild": "4.6.1", "_assets": [ "extra/BCGcalc.html", "extra/citation.cff", "extra/citation.html", "extra/citation.json", "extra/citation.txt", "extra/contents.json", "extra/manual.pdf", "extra/NEWS.html", "extra/NEWS.txt", "extra/readme.html", "extra/readme.md", "LICENSE" ], "_homeurl": "https://github.com/leppott/bcgcalc", "_realowner": "leppott", "_cranurl": true, "_releases": [ { "version": "2.3.1", "date": "2026-08-08" } ], "_exports": [ "BCG.ContLevelText", "BCG.Level.Assignment", "BCG.Level.Membership", "BCG.Metric.Membership" ], "_datasets": [ { "name": "metrics_values", "title": "Metric Values", "object": "metrics_values", "class": [ "data.frame" ], "fields": [ "SAMPLEID", "AREA_MI2", "SURFACEAREA", "DENSITY_M2", "DENSITY_FT2", "INDEX_NAME", "INDEX_CLASS", "ni_total", "li_total", "ni_Chiro", "ni_EPT", "ni_Trich", "ni_Americo", "ni_Gnorimo", "ni_brackish", "ni_Ramello", "nt_total", "nt_Amph", "nt_Bival", "nt_Coleo", "nt_COET", "nt_CruMol", "nt_Deca", "nt_Dipt", "nt_ECT", "nt_Ephem", "nt_Ephemerellid", "nt_EPT", "nt_ET", "nt_Gast", "nt_Hemipt", "nt_Hepta", "nt_Insect", "nt_Isop", "nt_Mega", "nt_Mol", "nt_Nemour", "nt_NonIns", "nt_Odon", "nt_OET", "nt_Oligo", "nt_Perlid", "nt_Pleco", "nt_POET", "nt_Ptero", "nt_Rhya", "nt_Tipulid", "nt_Trich", "nt_Tromb", "nt_Tubif", "pi_Ampe", "pi_AmpeHaust", "pi_Amph", "pi_AmphIsop", "pi_Baet", "pi_Bival", "pi_Caen", "pi_Coleo", "pi_COET", "pi_Corb", "pi_CraCaeGam", "pi_Cru", "pi_CruMol", "pi_Deca", "pi_Dipt", "pi_DiptNonIns", "pi_ECT", "pi_Ephem", "pi_EphemNoCae", "pi_EphemNoCaeBae", "pi_EPT", "pi_EPTNoBaeHydro", "pi_EPTNoCheu", "pi_EPTNoHydro", "pi_ET", "pi_Gast", "pi_Hemipt", "pi_Hydro", "pi_Hydro2EPT", "pi_Hydro2Trich", "pi_Insect", "pi_Isop", "pi_IsopGastHiru", "pi_Juga", "pi_JugaFlumi", "pi_Mega", "pi_Mol", "pi_Nemata", "pi_NonIns", "pi_Odon", "pi_OET", "pi_Oligo", "pi_Pleco", "pi_POET", "pi_Sphaer", "pi_SphaerCorb", "pi_Trich", "pi_TrichNoHydro", "pi_Tromb", "pi_Tubif", "pt_Amph", "pt_Bival", "pt_Coleo", "pt_COET", "pt_Deca", "pt_Dipt", "pt_ECT", "pt_Ephem", "pt_EPT", "pt_ET", "pt_Gast", "pt_Hemipt", "pt_Insect", "pt_Isop", "pt_Mega", "pt_NonIns", "pt_Odon", "pt_OET", "pt_Oligo", "pt_Pleco", "pt_POET", "pt_Trich", "pt_Tromb", "nt_Chiro", "pi_Chiro", "pt_Chiro", "pi_Ortho", "pi_Tanyt", "pi_Tanyp", "pi_COC2Chi", "pi_ChCr2Chi", "pi_Orth2Chi", "pi_Tanyp2Chi", "pi_ChiroAnne", "pi_dom02_BCG_att456_NoJugaRiss", "nt_NonIns_BCG_att456", "pi_NonIns_BCG_att456", "pt_NonIns_BCG_att456", "nt_NonInsJugaRiss_BCG_att456", "pi_NonInsJugaRiss_BCG_att456", "pt_NonInsJugaRiss_BCG_att456", "pi_SimBtri", "pi_Colesens", "nt_longlived", "nt_noteworthy", "nt_ffg2_pred", "ni_Noto", "nt_ti_stenocold", "nt_ti_cold", "nt_ti_cool", "nt_ti_warm", "nt_ti_stenowarm", "nt_ti_eury", "nt_ti_cowa", "nt_ti_na", "nt_ti_stenocold_cold", "nt_ti_stenocold_cold_cool", "nt_ti_cowa_warm_stenowarm", "nt_ti_warm_stenowarm", "pi_ti_stenocold", "pi_ti_cold", "pi_ti_cool", "pi_ti_warm", "pi_ti_stenowarm", "pi_ti_eury", "pi_ti_cowa", "pi_ti_na", "pi_ti_stenocold_cold", "pi_ti_stenocold_cold_cool", "pi_ti_cowa_warm_stenowarm", "pi_ti_warm_stenowarm", "pt_ti_stenocold", "pt_ti_cold", "pt_ti_cool", "pt_ti_warm", "pt_ti_stenowarm", "pt_ti_eury", "pt_ti_cowa", "pt_ti_na", "pt_ti_stenocold_cold", "pt_ti_stenocold_cold_cool", "pt_ti_cowa_warm_stenowarm", "pt_ti_warm_stenowarm", "ri_ti_sccc_wsw", "nt_tv_intol", "nt_tv_intol4", "nt_tv_toler", "pi_tv_intol", "pi_tv_intol4", "pi_tv_toler", "pi_tv_toler6", "pt_tv_intol", "pt_tv_intol4", "pt_tv_toler", "nt_tv_intol4_EPT", "nt_tv_ntol", "nt_tv_stol", "pi_tv_ntol", "pi_tv_stol", "pt_tv_ntol", "pt_tv_stol", "pi_tv2_intol", "pi_tv2_toler_ISA_SalHi_xFL", "pi_tv2_intol_ISA_SalHi_xFL", "pt_tv2_intol_ISA_SalHi_xFL", "nt_ffg_col", "nt_ffg_filt", "nt_ffg_pred", "nt_ffg_scrap", "nt_ffg_shred", "nt_ffg_mah", "nt_ffg_omn", "nt_ffg_par", "nt_ffg_pih", "nt_ffg_xyl", "nt_ffg_pred_scrap_shred", "pi_ffg_col", "pi_ffg_filt", "pi_ffg_pred", "pi_ffg_scrap", "pi_ffg_shred", "pi_ffg_mah", "pi_ffg_omn", "pi_ffg_par", "pi_ffg_pih", "pi_ffg_xyl", "pi_ffg_col_filt", "pt_ffg_col", "pt_ffg_filt", "pt_ffg_pred", "pt_ffg_scrap", "pt_ffg_shred", "pt_ffg_mah", "pt_ffg_omn", "pt_ffg_par", "pt_ffg_pih", "pt_ffg_xyl", "nt_ffg2_intface", "nt_ffg2_subsurf", "pi_ffg2_scavburr", "nt_habit_burrow", "nt_habit_climb", "nt_habit_cling", "nt_habit_sprawl", "nt_habit_swim", "pi_habit_burrow", "pi_habit_climb", "pi_habit_cling", "pi_habit_sprawl", "pi_habit_swim", "pt_habit_burrow", "pt_habit_climb", "pt_habit_cling", "pt_habit_sprawl", "pt_habit_swim", "pi_habit_cling_PlecoNoCling", "nt_volt_multi", "nt_volt_semi", "nt_volt_uni", "pi_volt_multi", "pi_volt_semi", "pi_volt_uni", "pt_volt_multi", "pt_volt_semi", "pt_volt_uni", "pi_dom01", "pi_dom02", "pi_dom03", "pi_dom04", "pi_dom05", "pi_dom06", "pi_dom07", "pi_dom08", "pi_dom09", "pi_dom10", "x_Becks", "x_Becks3", "x_HBI", "x_HBI2", "x_NCBI", "x_Shan_e", "x_Shan_2", "x_Shan_10", "x_D", "x_D_G", "x_D_Mg", "x_Evenness", "nt_habitat_brac", "nt_habitat_depo", "nt_habitat_gene", "nt_habitat_head", "nt_habitat_rheo", "nt_habitat_rive", "nt_habitat_spec", "nt_habitat_unkn", "pi_habitat_brac", "pi_habitat_depo", "pi_habitat_gene", "pi_habitat_head", "pi_habitat_rheo", "pi_habitat_rive", "pi_habitat_spec", "pi_habitat_unkn", "pt_habitat_brac", "pt_habitat_depo", "pt_habitat_gene", "pt_habitat_head", "pt_habitat_rheo", "pt_habitat_rive", "pt_habitat_spec", "pt_habitat_unkn", "nt_BCG_att1", "nt_BCG_att1i", "nt_BCG_att1m", "nt_BCG_att12", "nt_BCG_att1i2", "nt_BCG_att123", "nt_BCG_att1i23", "nt_BCG_att1i236i", "nt_BCG_att2", "nt_BCG_att23", "nt_BCG_att234", "nt_BCG_att3", "nt_BCG_att4", "nt_BCG_att45", "nt_BCG_att456", "nt_BCG_att5", "nt_BCG_att56", "nt_BCG_att56t", "nt_BCG_att6", "nt_BCG_att6i", "nt_BCG_att6m", "nt_BCG_att6t", "nt_BCG_attNA", 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"pt_BCG_att6", "pt_BCG_att6i", "pt_BCG_att6m", "pt_BCG_att6t", "pt_BCG_attNA", "pt_BCG_att4b", "pt_BCG_att4w", "pt_BCG_att1i234b5", "pt_BCG_att1i234w5", "pt_EPT_BCG_att123", "pt_EPT_BCG_att1i23", "x_UFC", "nt_elev_low", "nt_elev_high", "nt_grad_low", "nt_grad_mod", "nt_grad_high", "nt_wsarea_small", "nt_wsarea_medium", "nt_wsarea_large", "nt_wsarea_xlarge", "nt_habstruct_coarsesub", "nt_habstruct_noflow", "nt_habstruct_rootmat", "nt_habstruct_snag", "nt_habstruct_NA", "pi_habstruct_coarsesub", "pi_habstruct_noflow", "pi_habstruct_rootmat", "pi_habstruct_snag", "pi_habstruct_NA", "pt_habstruct_coarsesub", "pt_habstruct_noflow", "pt_habstruct_rootmat", "pt_habstruct_snag", "pt_habstruct_NA", "nval_habstruct", "nfam_Coleo", "nfam_Ephem", "nfam_Odon", "nfam_Trich", "ngen_Coleo", "ngen_Ephem", "ngen_Odon", "ngen_Trich", "ngen_Elmid", "nt_NonInsArachDeca_BCG_att456", "pi_NonInsArachDeca_BCG_att456", "pt_NonInsArachDeca_BCG_att456", "nt_NonInsArachDecaJugaRiss_BCG_att456", "pi_NonInsArachDecaJugaRiss_BCG_att456", "pt_NonInsArachDecaJugaRiss_BCG_att456", "nt_NonInsTrombJuga_BCG_att456", "pi_NonInsTrombJuga_BCG_att456", "pt_NonInsTrombJuga_BCG_att456", "nt_oneind", "pt_oneind" ], "rows": 678, "table": true, "tojson": true }, { "name": "TaxaMaster_Ben_BCG_PugLowWilVal", "title": "Benthic Master Taxa List, BCG Puget Lowlands Willamette Valley", "object": "TaxaMaster_Ben_BCG_PugLowWilVal", "class": [ "data.frame" ], "fields": [ "TaxaID", "Phylum", "SubPhylum", "Class", "SubClass", "Order", "SuperFamily", "Family", "Tribe", "Genus", "SubGenus", "Species", "BCG_Attr", "NonTarget", "Thermal_Indicator", "Long_Lived", "FFG", "Habit", "Life_Cycle", "TolVal" ], "rows": 684, "table": true, "tojson": true } ], "_help": [ { "page": "BCGcalc-package", "title": "BCGcalc: Metric calculation and other tasks related to BCG", "topics": [ "BCGcalc-package", "BCGcalc" ] }, { "page": "BCG.Level.Assignment", "title": "BCG Level Assignment", "topics": [ "BCG.Level.Assignment" ] 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