Extract numeric OTT ids from a character vector that combines taxon names and OTT ids.

Extract numeric OTT ids from a character vector that combines taxon names and OTT ids.

Usage

extract_ott_ids(x, na.rm = TRUE)

# S3 method for default
extract_ott_ids(x, na.rm = TRUE)

Arguments

x

A character vector of taxon names, or a phylo object with tree tip labels containing OTT ids.

na.rm

A logical value indicating whether NA values should be stripped from the output.

Value

An object of class numeric containing OTT ids only.

NULL

Examples

if (FALSE)  # This is a flag for package development. You are welcome to run the example.

canis <- rotl::tnrs_match_names("canis")
canis_taxonomy <- rotl::taxonomy_subtree(canis$ott_id)
#> Error in eval(expr, envir, enclos): object 'canis' not found
my_ott_ids <- extract_ott_ids(x = canis_taxonomy$tip_label)
#> Error in eval(expr, envir, enclos): object 'canis_taxonomy' not found
# Get the problematic elements from input
canis_taxonomy$tip_label[attr(my_ott_ids, "na.action")]
#> Error in eval(expr, envir, enclos): object 'canis_taxonomy' not found

 # end dontrun