Get Microorganism from GTDB Species Name

Parse a character vector containing species names from GTDB output to get a valid microorganism code.

Usage

gtdb.mo(species)

Arguments

species

Name of species, coerced with AMR::as.mo().

Value

A character vector of valid microorganism codes as determined by AMR::as.mo().

Examples

gtdb.mo("Escherichia_A coli_BC")
#> Class 'mo'
#> [1] B_ESCHR_COLI_COLI