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 × 10
#>   domain    supergroup  divis…¹ subdi…² class order family genus species n_seq…³
#>   <chr>     <chr>       <chr>   <chr>   <chr> <chr> <chr>  <chr> <chr>     <int>
#> 1 Eukaryota Archaeplas… Chloro… Chloro… Mami… Mami… Bathy… Ostr… Ostreo…      62
#> 2 Eukaryota Archaeplas… Chloro… Chloro… Mami… Mami… Bathy… Ostr… Ostreo…     141
#> 3 Eukaryota Archaeplas… Chloro… Chloro… Mami… Mami… Bathy… Ostr… Ostreo…      22
#> 4 Eukaryota Archaeplas… Chloro… Chloro… Mami… Mami… Bathy… Ostr… Ostreo…      37
#> 5 Eukaryota Archaeplas… Chloro… Chloro… Mami… Mami… Bathy… Ostr… Ostreo…      32
#> # … with abbreviated variable names ¹​division, ²​subdivision, ³​n_sequences