This function matches given species names against the internal database of endemic plant species in Peru.
matching_ppendemic(
splist,
max_dist = 2,
save_ambiguous = FALSE,
ambiguous_path = "ambiguous_genera.csv"
)Returns a tibble with the matched names in Matched.Genus, Matched.Species for binomial names, and Matched.Infraspecies for valid infra species names.
A vector containing the species list.
Maximum edit distance used in fuzzy matching steps. Defaults to 2 (the default in fuzzyjoin::stringdist_left_join()).
Logical flag. If TRUE, ambiguous fuzzy genus matches
are exported to disk.
File path used when save_ambiguous = TRUE. Defaults
to "ambiguous_genera.csv".
The function first attempts to directly match species names with exact matches in the database (genus and specific epithet, or genus, specific epithet, and infra species). If no exact match is found, the function performs a fuzzy match using the fuzzyjoin package with optimal string alignment distance as implemented in stringdist.
The maximum edit distance can be controlled through max_dist.
The function matching_ppendemic returns a tibble with new columns Matched.Genus, Matched.Species, and Matched.Infraspecies, containing the matched names or NA if no match was found.
Additionally, a logical column is added for each function called, allowing users to see which functions were applied to each name during the matching process. If a process column shows NA, the corresponding function was not called for that name because it was already matched by a preceding function.