A small test taxonomy file for package tests. This dataset was built by filtering the taxonomy data from the three test datasets, beesFlagged, beesRaw, bees3sp.

data("testTaxonomy", package = "BeeBDC")

Format

An object of class "tibble"

taxonomic_status

Taxonomic status. Values are "accepted" or "synonym"

source

Source of the name.

accid

The id of the accepted taxon name or "0" if taxonomic_status == accepted.

id

The id number for the taxon name.

kingdom

The biological kingdom the taxon belongs to. For bees, kingdom == Animalia.

phylum

The biological phylum the taxon belongs to. For bees, phylum == Arthropoda.

class

The biological class the taxon belongs to. For bees, class == Insecta.

order

The biological order the taxon belongs to. For bees, order == Hymenoptera.

family

The family of bee which the species belongs to.

subfamily

The subfamily of bee which the species belongs to.

tribe

The tribe of bee which the species belongs to.

subtribe

The subtribe of bee which the species belongs to.

validName

The valid scientific name as it should occur in the 'scientificName" column in a Darwin Core file.

canonical

The scientificName without the scientificNameAuthority.

canonical_withFlags

The scientificName without the scientificNameAuthority and with Discover Life taxonomy flags.

genus

The genus the bee species belongs to.

subgenus

The subgenus the bee species belongs to.

species

The specific epithet for the bee species.

infraspecies

The infraspecific epithet for the bee addressed.

authorship

The author who described the bee species.

taxon_rank

Rank for the bee taxon addressed in the entry.

notes

Additional notes about the name/taxon.

References

This dataset is a subset of the beesTaxonomy file described in: Dorey, J.B., Fischer, E.E., Chesshire, P.R., Nava-Bolaños, A., O’Reilly, R.L., Bossert, S., Collins, S.M., Lichtenberg, E.M., Tucker, E., Smith-Pardo, A., Falcon-Brindis, A., Guevara, D.A., Ribeiro, B.R., de Pedro, D., Hung, J.K.-L., Parys, K.A., McCabe, L.M., Rogan, M.S., Minckley, R.L., Velzco, S.J.E., Griswold, T., Zarrillo, T.A., Jetz, W., Sica, Y.V., Orr, M.C., Guzman, L.M., Ascher, J., Hughes, A.C. & Cobb, N.S. (2023) A globally synthesised and flagged bee occurrence dataset and cleaning workflow. Scientific Data, 10, 1–17. https://www.doi.org/10.1038/S41597-023-02626-W

Examples


beesRaw <- BeeBDC::testTaxonomy
head(testTaxonomy)
#> # A tibble: 6 × 24
#>   flags taxonomic_status source    accid    id kingdom phylum class order family
#>   <chr> <chr>            <chr>     <dbl> <dbl> <chr>   <chr>  <chr> <chr> <chr> 
#> 1 NA    accepted         Discover…     0  2288 Animal… Arthr… Inse… Hyme… Andre…
#> 2 NA    accepted         Discover…     0  4305 Animal… Arthr… Inse… Hyme… Andre…
#> 3 NA    accepted         Discover…     0  4765 Animal… Arthr… Inse… Hyme… Andre…
#> 4 NA    accepted         Discover…     0  4783 Animal… Arthr… Inse… Hyme… Andre…
#> 5 NA    accepted         Discover…     0  5059 Animal… Arthr… Inse… Hyme… Andre…
#> 6 NA    accepted         Discover…     0  5264 Animal… Arthr… Inse… Hyme… Andre…
#> # ℹ 14 more variables: subfamily <chr>, tribe <chr>, subtribe <chr>,
#> #   validName <chr>, canonical <chr>, canonical_withFlags <chr>, genus <chr>,
#> #   subgenus <chr>, species <chr>, infraspecies <chr>, authorship <chr>,
#> #   taxon_rank <chr>, valid <lgl>, notes <chr>