fillTax: reshape the heirarchical taxonomy

In otuSummary: Summarizing OTU Table Regarding the Composition, Abundance and Beta Diversity of Abundant and Rare Biospheres

reshape the heirarchical taxonomy

Description

reformat the taxonomy with the last clear assignment and changing the prefix

Usage

fillTax(x, split = ';', prefix=TRUE, fillAll=TRUE)

Arguments

x	Character, structured strings giving the heirarchical rank of taxonomy, e.g., d__Bacteria; p__Planctomycetota;c__Planctomycetes;o__Gemmatales;f__Gemmataceae;g__;s__
split	Character, the seperator for the heirarchical taxonomy.
prefix	Logical, whether contains prefix in the taxonomic strings, default TRUE.
fillAll	Logical, whether to fill all taxonic level, default TRUE.

See Also

fillTax2, slimTax

Examples

  test = 'd__Bacteria;p__Planctomycetota;c__Planctomycetes;o__Gemmatales;f__Gemmataceae;g__;s__'
  fillTax(x = test, split = ';', prefix=TRUE, fillAll=TRUE)

otuSummary documentation built on Sept. 8, 2023, 6:05 p.m.