RNeXML (version 2.4.0)

taxize_nexml: taxize nexml

Description

Check taxonomic names against the specified service and add appropriate semantic metadata to the nexml OTU unit containing the corresponding identifier.

Usage

taxize_nexml(nexml, type = c("ncbi", "itis", "col", "tpl", "gbif", "wd"),
  warnings = TRUE, ...)

Arguments

nexml

a nexml object

type

the name of the identifier to use

warnings

should we show warning messages if no match can be found?

...

additional arguments to [taxadb::get_ids()]

Examples

# NOT RUN {
data(bird.orders)
birds <- add_trees(bird.orders)
birds <- taxize_nexml(birds, "NCBI")
# }