Find taxa with ambiguous names, such as "unknown" or "uncultured".
is_ambiguous(taxon_names, unknown = TRUE, uncultured = TRUE,
name_regex = ".", ignore_case = TRUE)
A taxmap
object
If TRUE
, Remove taxa with names the suggest they are
placeholders for unknown taxa (e.g. "unknown ...").
If TRUE
, Remove taxa with names the suggest they are
assigned to uncultured organisms (e.g. "uncultured ...").
The regex code to match a valid character in a taxon name. For example, "[a-z]" would mean taxon names can only be lower case letters.
If TRUE
, dont consider the case of the text when
determining a match.
TRUE/FALSE vector corresponding to taxon_names
If you encounter a taxon name that represents an ambiguous taxon that is not filtered out by this function, let us know and we will add it.