I'm trying to retrieve species occurrence using the R package spocc. When I include from = 'idigbio' the species name that are returned do not match the species name that I submitted. Here is an example using only three species:
Retrieving data from gbif, bison, and ecoengine with the occ function
spnames<-c('Lindsaea lancea', 'Adiantum tomentosum', 'Trichomanes elegans')
df <- occ(query = spnames, from = c('gbif', 'bison', 'ecoengine'),
gbifopts = list(limit = 100, hasCoordinate=TRUE, basisOfRecord = 'PRESERVED_SPECIMEN', hasGeospatialIssue = FALSE),
ecoengineopts = list(limit = 100, basisofRecord = 'specimen'),
bisonopts = list(limit = 100, basisOfRecord = 'specimen'),
geometry = c(-81,-22,-40,10))
out<-occ2df(df)
unique(out$name)
> unique(out$name)
[1] "Lindsaea lancea" "Adiantum tomentosum" "Trichomanes elegans"
Retrieving data from idigbio with occ
df1 <- occ(query = spnames, from = 'idigbio',
idigbioopts = list(limit = 100, basisOfRecord = 'specimen'),
geometry = c(-81,-22,-40,10)) # This returns 100 different names (not synonyms)
Retrieving data from idigbio with idig_search_records (package ridigbio)
ff<-idig_search_records(rq=list(scientificname=spnames), limit=100)
unique(ff$scientificname)
[1] "lindsaea lancea" "adiantum tomentosum" "trichomanes elegans"
Any idea why occ is not returning the correct species when searching idigbio?
Many thanks!
