The PR2 database taxonomy is provided as a data frame with the number of sequences for each taxon
Examples
# Read the whole database taxonomy
my_pr2_taxo <- pr2_taxonomy()
# Select a specific genus
my_pr2_taxo <- dplyr::filter( my_pr2_taxo , genus == "Ostreococcus")
head(my_pr2_taxo)
#> # A tibble: 5 × 15
#> domain supergroup division subdivision class order family genus species
#> <chr> <chr> <chr> <chr> <chr> <chr> <chr> <chr> <chr>
#> 1 Eukaryota Archaeplastida Chlorop… Chlorophyt… Mami… Mami… Bathy… Ostr… Ostreo…
#> 2 Eukaryota Archaeplastida Chlorop… Chlorophyt… Mami… Mami… Bathy… Ostr… Ostreo…
#> 3 Eukaryota Archaeplastida Chlorop… Chlorophyt… Mami… Mami… Bathy… Ostr… Ostreo…
#> 4 Eukaryota Archaeplastida Chlorop… Chlorophyt… Mami… Mami… Bathy… Ostr… Ostreo…
#> 5 Eukaryota Archaeplastida Chlorop… Chlorophyt… Mami… Mami… Bathy… Ostr… Ostreo…
#> # ℹ 6 more variables: mixoplankton <chr>, HAB_species <chr>,
#> # ecological_function <chr>, n_sequences_SSU <int>, n_sequences_operon <int>,
#> # species_url <glue>