name_or_id2df: Transfer taxon name or taxid to the lineage dataframe

In pctax: Professional Comprehensive Omics Data Analysis

Transfer taxon name or taxid to the lineage dataframe

Description

Transfer taxon name or taxid to the lineage dataframe

Usage

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

## Not run: 
name_or_id2df(c("Homo sapiens", "Akkermansia muciniphila ATCC BAA-835"))

## End(Not run)

pctax documentation built on April 4, 2025, 2:26 a.m.