search_na_taxon: Try harder to fill in the taxonomy ID number.

In khughitt/EuPathDB: Provides access to pathogen annotation resources available on EuPathDB databases

Try harder to fill in the taxonomy ID number.

Description

I think if we look a little harder, we can figure out a taxonomy number.

Usage

search_na_taxon(
  metadatum,
  all_taxa_ids,
  metadata_taxon_column = "TaxonUnmodified",
  taxon_number_column = "TaxonomyID",
  verbose = TRUE
)

Arguments

metadatum	Downloaded metadata from eupathdb.
all_taxa_ids	Taxonomy Information.
metadata_taxon_column	Column which contains the taxon name (not ID).
taxon_number_column	Column which should (but not always) contain the ID number.

khughitt/EuPathDB documentation built on Nov. 4, 2023, 4:19 a.m.