One problem you often run in to is that there can be various names for the same taxon in any one source. For example:
library(spocc) df <- occ(query = 'Pinus contorta', from = c('gbif', 'idigbio'), limit = 50) unique(df$gbif$data$Pinus_contorta$name) #> [1] "Pinus contorta Douglas ex Loudon" #> [2] "Pinus contorta var. latifolia Engelm." #> [3] "Pinus contorta var. contorta" unique(df$idigbio$data$Pinus_contorta$name) #> [1] "pinus contorta"
This is fine, but when trying to make a map in which points are colored for each taxon, you can have many colors for a single taxon, where instead one color per taxon is more appropriate. There is a function in scrubr
called fix_names()
, which has a few options in which you can take the shortest names (usually just the plain binomials like Homo sapiens), or the original name queried, or a vector of names supplied by the user. scrubr
is no longer maintained and no longer on CRAN, but you can get the package on GitHub at http://github.com/ropensci-archive/scrubr.
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