OTUtoTaxa: Input OTUs and outputs their taxonomic detail, optinally...

Description Usage Arguments

View source: R/OTUtoTaxa.R

Description

Input OTUs and outputs their taxonomic detail, optinally trimmed to their common taxonomic levels.

Usage

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OTUtoTaxa(otus, Taxonomy, common.name = F, uniques = F,
  minimum.level = Inf)

Arguments

otus

Species IDs found in first column of Taxonomy

Taxonomy

Taxonomy whose first column has OTUs/species IDs and whose second column has greengenes-compatible taxonomic strings

common.name

Logical indicating whether or not to trim the output to the longest common prefix in the taxonomic strings of all otus

uniques

Logical whether or not to trim list to only unique entries

minimum.level

integer indicating the minimum number of taxonomic levels to include starting from the coarsest (Left-most) taxonomic level.


reptalex/phylofactor documentation built on Oct. 19, 2018, 7:22 p.m.