R/BCI.R

In biosampleR: Biodiversity Index Calculation and Bootstrap Confidence Interval Estimation

#' Barro-Colorado Island Tree Counts
#'
#' This dataset contains tree counts from Barro-Colorado Island. It has 50
#' rows each representing the counts taken from a separate one hectare plot
#' for each of the 225 species (columns)
#'
#'
#' @format A data frame with 50 rows and 225 columns:
#' \describe{
#'  \item{Abarema.macradenia}{Count for Abarema.macradenia}
#'  \item{Vachellia.melanoceras}{Count for Vachellia.melanoceras}
#'  \item{Acalypha.diversifolia}{Count for Acalypha.diversifolia}
#'  \item{Acalypha.macrostachya}{Count for Acalypha.macrostachya}
#'  \item{Adelia.triloba}{Count for Adelia.triloba}
#'  \item{Aegiphila.panamensis}{Count for Aegiphila.panamensis}
#'  \item{Alchornea.costaricensis}{Count for Alchornea.costaricensis}
#'  \item{Alchornea.latifolia}{Count for Alchornea.latifolia}
#'  \item{Alibertia.edulis}{Count for Alibertia.edulis}
#'  \item{Allophylus.psilospermus}{Count for Allophylus.psilospermus}
#'  \item{Alseis.blackiana}{Count for Alseis.blackiana}
#'  \item{Amaioua.corymbosa}{Count for Amaioua.corymbosa}
#'  \item{Anacardium.excelsum}{Count for Anacardium.excelsum}
#'  \item{Andira.inermis}{Count for Andira.inermis}
#'  \item{Annona.spraguei}{Count for Annona.spraguei}
#'  \item{Apeiba.glabra}{Count for Apeiba.glabra}
#'  \item{Apeiba.tibourbou}{Count for Apeiba.tibourbou}
#'  \item{Aspidosperma.desmanthum}{Count for Aspidosperma.desmanthum}
#'  \item{Astrocaryum.standleyanum}{Count for Astrocaryum.standleyanum}
#'  \item{Astronium.graveolens}{Count for Astronium.graveolens}
#'  \item{Attalea.butyracea}{Count for Attalea.butyracea}
#'  \item{Banara.guianensis}{Count for Banara.guianensis}
#'  \item{Beilschmiedia.pendula}{Count for Beilschmiedia.pendula}
#'  \item{Brosimum.alicastrum}{Count for Brosimum.alicastrum}
#'  \item{Brosimum.guianense}{Count for Brosimum.guianense}
#'  \item{Calophyllum.longifolium}{Count for Calophyllum.longifolium}
#'  \item{Casearia.aculeata}{Count for Casearia.aculeata}
#'  \item{Casearia.arborea}{Count for Casearia.arborea}
#'  \item{Casearia.commersoniana}{Count for Casearia.commersoniana}
#'  \item{Casearia.guianensis}{Count for Casearia.guianensis}
#'  \item{Casearia.sylvestris}{Count for Casearia.sylvestris}
#'  \item{Cassipourea.guianensis}{Count for Cassipourea.guianensis}
#'  \item{Cavanillesia.platanifolia}{Count for Cavanillesia.platanifolia}
#'  \item{Cecropia.insignis}{Count for Cecropia.insignis}
#'  \item{Cecropia.obtusifolia}{Count for Cecropia.obtusifolia}
#'  \item{Cedrela.odorata}{Count for Cedrela.odorata}
#'  \item{Ceiba.pentandra}{Count for Ceiba.pentandra}
#'  \item{Celtis.schippii}{Count for Celtis.schippii}
#'  \item{Cespedesia.spathulata}{Count for Cespedesia.spathulata}
#'  \item{Chamguava.schippii}{Count for Chamguava.schippii}
#'  \item{Chimarrhis.parviflora}{Count for Chimarrhis.parviflora}
#'  \item{Maclura.tinctoria}{Count for Maclura.tinctoria}
#'  \item{Chrysochlamys.eclipes}{Count for Chrysochlamys.eclipes}
#'  \item{Chrysophyllum.argenteum}{Count for Chrysophyllum.argenteum}
#'  \item{Chrysophyllum.cainito}{Count for Chrysophyllum.cainito}
#'  \item{Coccoloba.coronata}{Count for Coccoloba.coronata}
#'  \item{Coccoloba.manzinellensis}{Count for Coccoloba.manzinellensis}
#'  \item{Colubrina.glandulosa}{Count for Colubrina.glandulosa}
#'  \item{Cordia.alliodora}{Count for Cordia.alliodora}
#'  \item{Cordia.bicolor}{Count for Cordia.bicolor}
#'  \item{Cordia.lasiocalyx}{Count for Cordia.lasiocalyx}
#'  \item{Coussarea.curvigemma}{Count for Coussarea.curvigemma}
#'  \item{Croton.billbergianus}{Count for Croton.billbergianus}
#'  \item{Cupania.cinerea}{Count for Cupania.cinerea}
#'  \item{Cupania.latifolia}{Count for Cupania.latifolia}
#'  \item{Cupania.rufescens}{Count for Cupania.rufescens}
#'  \item{Cupania.seemannii}{Count for Cupania.seemannii}
#'  \item{Dendropanax.arboreus}{Count for Dendropanax.arboreus}
#'  \item{Desmopsis.panamensis}{Count for Desmopsis.panamensis}
#'  \item{Diospyros.artanthifolia}{Count for Diospyros.artanthifolia}
#'  \item{Dipteryx.oleifera}{Count for Dipteryx.oleifera}
#'  \item{Drypetes.standleyi}{Count for Drypetes.standleyi}
#'  \item{Elaeis.oleifera}{Count for Elaeis.oleifera}
#'  \item{Enterolobium.schomburgkii}{Count for Enterolobium.schomburgkii}
#'  \item{Erythrina.costaricensis}{Count for Erythrina.costaricensis}
#'  \item{Erythroxylum.macrophyllum}{Count for Erythroxylum.macrophyllum}
#'  \item{Eugenia.florida}{Count for Eugenia.florida}
#'  \item{Eugenia.galalonensis}{Count for Eugenia.galalonensis}
#'  \item{Eugenia.nesiotica}{Count for Eugenia.nesiotica}
#'  \item{Eugenia.oerstediana}{Count for Eugenia.oerstediana}
#'  \item{Faramea.occidentalis}{Count for Faramea.occidentalis}
#'  \item{Ficus.colubrinae}{Count for Ficus.colubrinae}
#'  \item{Ficus.costaricana}{Count for Ficus.costaricana}
#'  \item{Ficus.insipida}{Count for Ficus.insipida}
#'  \item{Ficus.maxima}{Count for Ficus.maxima}
#'  \item{Ficus.obtusifolia}{Count for Ficus.obtusifolia}
#'  \item{Ficus.popenoei}{Count for Ficus.popenoei}
#'  \item{Ficus.tonduzii}{Count for Ficus.tonduzii}
#'  \item{Ficus.trigonata}{Count for Ficus.trigonata}
#'  \item{Ficus.yoponensis}{Count for Ficus.yoponensis}
#'  \item{Garcinia.intermedia}{Count for Garcinia.intermedia}
#'  \item{Garcinia.madruno}{Count for Garcinia.madruno}
#'  \item{Genipa.americana}{Count for Genipa.americana}
#'  \item{Guapira.myrtiflora}{Count for Guapira.myrtiflora}
#'  \item{Guarea.fuzzy}{Count for Guarea.fuzzy}
#'  \item{Guarea.grandifolia}{Count for Guarea.grandifolia}
#'  \item{Guarea.guidonia}{Count for Guarea.guidonia}
#'  \item{Guatteria.dumetorum}{Count for Guatteria.dumetorum}
#'  \item{Guazuma.ulmifolia}{Count for Guazuma.ulmifolia}
#'  \item{Guettarda.foliacea}{Count for Guettarda.foliacea}
#'  \item{Gustavia.superba}{Count for Gustavia.superba}
#'  \item{Hampea.appendiculata}{Count for Hampea.appendiculata}
#'  \item{Hasseltia.floribunda}{Count for Hasseltia.floribunda}
#'  \item{Heisteria.acuminata}{Count for Heisteria.acuminata}
#'  \item{Heisteria.concinna}{Count for Heisteria.concinna}
#'  \item{Hirtella.americana}{Count for Hirtella.americana}
#'  \item{Hirtella.triandra}{Count for Hirtella.triandra}
#'  \item{Hura.crepitans}{Count for Hura.crepitans}
#'  \item{Hieronyma.alchorneoides}{Count for Hieronyma.alchorneoides}
#'  \item{Inga.acuminata}{Count for Inga.acuminata}
#'  \item{Inga.cocleensis}{Count for Inga.cocleensis}
#'  \item{Inga.goldmanii}{Count for Inga.goldmanii}
#'  \item{Inga.laurina}{Count for Inga.laurina}
#'  \item{Inga.semialata}{Count for Inga.semialata}
#'  \item{Inga.nobilis}{Count for Inga.nobilis}
#'  \item{Inga.oerstediana}{Count for Inga.oerstediana}
#'  \item{Inga.pezizifera}{Count for Inga.pezizifera}
#'  \item{Inga.punctata}{Count for Inga.punctata}
#'  \item{Inga.ruiziana}{Count for Inga.ruiziana}
#'  \item{Inga.sapindoides}{Count for Inga.sapindoides}
#'  \item{Inga.spectabilis}{Count for Inga.spectabilis}
#'  \item{Inga.umbellifera}{Count for Inga.umbellifera}
#'  \item{Jacaranda.copaia}{Count for Jacaranda.copaia}
#'  \item{Lacistema.aggregatum}{Count for Lacistema.aggregatum}
#'  \item{Lacmellea.panamensis}{Count for Lacmellea.panamensis}
#'  \item{Laetia.procera}{Count for Laetia.procera}
#'  \item{Laetia.thamnia}{Count for Laetia.thamnia}
#'  \item{Lafoensia.punicifolia}{Count for Lafoensia.punicifolia}
#'  \item{Licania.hypoleuca}{Count for Licania.hypoleuca}
#'  \item{Licania.platypus}{Count for Licania.platypus}
#'  \item{Lindackeria.laurina}{Count for Lindackeria.laurina}
#'  \item{Lonchocarpus.heptaphyllus}{Count for Lonchocarpus.heptaphyllus}
#'  \item{Luehea.seemannii}{Count for Luehea.seemannii}
#'  \item{Macrocnemum.roseum}{Count for Macrocnemum.roseum}
#'  \item{Maquira.guianensis.costaricana}{Count for Maquira.guianensis.costaricana}
#'  \item{Margaritaria.nobilis}{Count for Margaritaria.nobilis}
#'  \item{Marila.laxiflora}{Count for Marila.laxiflora}
#'  \item{Maytenus.schippii}{Count for Maytenus.schippii}
#'  \item{Miconia.affinis}{Count for Miconia.affinis}
#'  \item{Miconia.argentea}{Count for Miconia.argentea}
#'  \item{Miconia.elata}{Count for Miconia.elata}
#'  \item{Miconia.hondurensis}{Count for Miconia.hondurensis}
#'  \item{Mosannona.garwoodii}{Count for Mosannona.garwoodii}
#'  \item{Myrcia.gatunensis}{Count for Myrcia.gatunensis}
#'  \item{Myrospermum.frutescens}{Count for Myrospermum.frutescens}
#'  \item{Nectandra.cissiflora}{Count for Nectandra.cissiflora}
#'  \item{Nectandra.lineata}{Count for Nectandra.lineata}
#'  \item{Nectandra.purpurea}{Count for Nectandra.purpurea}
#'  \item{Ochroma.pyramidale}{Count for Ochroma.pyramidale}
#'  \item{Ocotea.cernua}{Count for Ocotea.cernua}
#'  \item{Ocotea.oblonga}{Count for Ocotea.oblonga}
#'  \item{Ocotea.puberula}{Count for Ocotea.puberula}
#'  \item{Ocotea.whitei}{Count for Ocotea.whitei}
#'  \item{Oenocarpus.mapora}{Count for Oenocarpus.mapora}
#'  \item{Ormosia.amazonica}{Count for Ormosia.amazonica}
#'  \item{Ormosia.coccinea}{Count for Ormosia.coccinea}
#'  \item{Ormosia.macrocalyx}{Count for Ormosia.macrocalyx}
#'  \item{Pachira.quinata}{Count for Pachira.quinata}
#'  \item{Pachira.sessilis}{Count for Pachira.sessilis}
#'  \item{Perebea.xanthochyma}{Count for Perebea.xanthochyma}
#'  \item{Cinnamomum.triplinerve}{Count for Cinnamomum.triplinerve}
#'  \item{Picramnia.latifolia}{Count for Picramnia.latifolia}
#'  \item{Piper.reticulatum}{Count for Piper.reticulatum}
#'  \item{Platymiscium.pinnatum}{Count for Platymiscium.pinnatum}
#'  \item{Platypodium.elegans}{Count for Platypodium.elegans}
#'  \item{Posoqueria.latifolia}{Count for Posoqueria.latifolia}
#'  \item{Poulsenia.armata}{Count for Poulsenia.armata}
#'  \item{Pourouma.bicolor}{Count for Pourouma.bicolor}
#'  \item{Pouteria.fossicola}{Count for Pouteria.fossicola}
#'  \item{Pouteria.reticulata}{Count for Pouteria.reticulata}
#'  \item{Pouteria.stipitata}{Count for Pouteria.stipitata}
#'  \item{Prioria.copaifera}{Count for Prioria.copaifera}
#'  \item{Protium.costaricense}{Count for Protium.costaricense}
#'  \item{Protium.panamense}{Count for Protium.panamense}
#'  \item{Protium.tenuifolium}{Count for Protium.tenuifolium}
#'  \item{Pseudobombax.septenatum}{Count for Pseudobombax.septenatum}
#'  \item{Psidium.friedrichsthalianum}{Count for Psidium.friedrichsthalianum}
#'  \item{Psychotria.grandis}{Count for Psychotria.grandis}
#'  \item{Pterocarpus.rohrii}{Count for Pterocarpus.rohrii}
#'  \item{Quararibea.asterolepis}{Count for Quararibea.asterolepis}
#'  \item{Quassia.amara}{Count for Quassia.amara}
#'  \item{Randia.armata}{Count for Randia.armata}
#'  \item{Sapium.broadleaf}{Count for Sapium.broadleaf}
#'  \item{Sapium.glandulosum}{Count for Sapium.glandulosum}
#'  \item{Schizolobium.parahyba}{Count for Schizolobium.parahyba}
#'  \item{Senna.dariensis}{Count for Senna.dariensis}
#'  \item{Simarouba.amara}{Count for Simarouba.amara}
#'  \item{Siparuna.guianensis}{Count for Siparuna.guianensis}
#'  \item{Siparuna.pauciflora}{Count for Siparuna.pauciflora}
#'  \item{Sloanea.terniflora}{Count for Sloanea.terniflora}
#'  \item{Socratea.exorrhiza}{Count for Socratea.exorrhiza}
#'  \item{Solanum.hayesii}{Count for Solanum.hayesii}
#'  \item{Sorocea.affinis}{Count for Sorocea.affinis}
#'  \item{Spachea.membranacea}{Count for Spachea.membranacea}
#'  \item{Spondias.mombin}{Count for Spondias.mombin}
#'  \item{Spondias.radlkoferi}{Count for Spondias.radlkoferi}
#'  \item{Sterculia.apetala}{Count for Sterculia.apetala}
#'  \item{Swartzia.simplex.var.grandiflora}{Count for Swartzia.simplex.var.grandiflora}
#'  \item{Swartzia.simplex.continentalis}{Count for Swartzia.simplex.continentalis}
#'  \item{Symphonia.globulifera}{Count for Symphonia.globulifera}
#'  \item{Handroanthus.guayacan}{Count for Handroanthus.guayacan}
#'  \item{Tabebuia.rosea}{Count for Tabebuia.rosea}
#'  \item{Tabernaemontana.arborea}{Count for Tabernaemontana.arborea}
#'  \item{Tachigali.versicolor}{Count for Tachigali.versicolor}
#'  \item{Talisia.nervosa}{Count for Talisia.nervosa}
#'  \item{Talisia.princeps}{Count for Talisia.princeps}
#'  \item{Terminalia.amazonia}{Count for Terminalia.amazonia}
#'  \item{Terminalia.oblonga}{Count for Terminalia.oblonga}
#'  \item{Tetragastris.panamensis}{Count for Tetragastris.panamensis}
#'  \item{Tetrathylacium.johansenii}{Count for Tetrathylacium.johansenii}
#'  \item{Theobroma.cacao}{Count for Theobroma.cacao}
#'  \item{Thevetia.ahouai}{Count for Thevetia.ahouai}
#'  \item{Tocoyena.pittieri}{Count for Tocoyena.pittieri}
#'  \item{Trattinnickia.aspera}{Count for Trattinnickia.aspera}
#'  \item{Trema.micrantha}{Count for Trema.micrantha}
#'  \item{Trichanthera.gigantea}{Count for Trichanthera.gigantea}
#'  \item{Trichilia.pallida}{Count for Trichilia.pallida}
#'  \item{Trichilia.tuberculata}{Count for Trichilia.tuberculata}
#'  \item{Trichospermum.galeottii}{Count for Trichospermum.galeottii}
#'  \item{Triplaris.cumingiana}{Count for Triplaris.cumingiana}
#'  \item{Trophis.caucana}{Count for Trophis.caucana}
#'  \item{Trophis.racemosa}{Count for Trophis.racemosa}
#'  \item{Turpinia.occidentalis}{Count for Turpinia.occidentalis}
#'  \item{Unonopsis.pittieri}{Count for Unonopsis.pittieri}
#'  \item{Virola.multiflora}{Count for Virola.multiflora}
#'  \item{Virola.sebifera}{Count for Virola.sebifera}
#'  \item{Virola.surinamensis}{Count for Virola.surinamensis}
#'  \item{Vismia.baccifera}{Count for Vismia.baccifera}
#'  \item{Vochysia.ferruginea}{Count for Vochysia.ferruginea}
#'  \item{Xylopia.macrantha}{Count for Xylopia.macrantha}
#'  \item{Zanthoxylum.ekmanii}{Count for Zanthoxylum.ekmanii}
#'  \item{Zanthoxylum.juniperinum}{Count for Zanthoxylum.juniperinum}
#'  \item{Zanthoxylum.panamense}{Count for Zanthoxylum.panamense}
#'  \item{Zanthoxylum.setulosum}{Count for Zanthoxylum.setulosum}
#'  \item{Zuelania.guidonia}{Count for Zuelania.guidonia}}
#' @source https://www.science.org/doi/10.1126/science.1066854
"BCI"