PR2 database - Taxonomy.

The PR2 database taxonomy is provided as a data frame with the number of sequences for each taxon

Usage

pr2_taxonomy()

Value

A data frame

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 × 16
#>   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 7 more variables: mixoplankton <chr>, HAB_species <chr>,
#> #   ecological_function <chr>, n_seq_SSU <int>, n_seq_operon <int>,
#> #   n_seq_coi <int>, species_url <glue>