Transfer taxon name or taxid to the lineage dataframe — name_or_id2df • pctax

Transfer taxon name or taxid to the lineage dataframe

name_or_id2df(
  name_or_id,
  mode = "name",
  add_prefix = TRUE,
  fill_miss_rank = TRUE,
  data_dir = NULL
)

Arguments

name_or_id: name or taxid
mode: "id" or "name"
add_prefix: add_prefix
fill_miss_rank: fill_miss_rank
data_dir: directory containing nodes.dmp and names.dmp (default "/Users/asa/.taxonkit")

Value

dataframe

See also

Other Rtaxonkit: check_taxonkit(), download_taxonkit_dataset(), install_taxonkit(), taxonkit_filter(), taxonkit_lca(), taxonkit_lineage(), taxonkit_list(), taxonkit_name2taxid(), taxonkit_reformat()

Examples

if (FALSE) { # \dontrun{
name_or_id2df(c("Homo sapiens", "Akkermansia muciniphila ATCC BAA-835"))
} # }