comp_prepare_otu_table: Prepare OTU Table
In jfq3/QsRutils: R Functions Useful for Community Ecology

Description Usage Arguments Details Value

Make OTU tables for making comparisons of relative abundances among treatments.

comp_prepare_otu_table(
  expt.taxon.pc,
  grps = "Treatment",
  transformation = "sqrt_arc_sine"
)

`expt.taxon.pc`	Phyloseq object from comp_prepare_phyloseq with percentages in the otu_table.
`grps`	Factor in sample data for which to make comparisons.
`transformation`	Transformation function to use.

transformation may be "none" or a user-supplied function name in quotation marks or any of the built-it transformations("arc_sine", "log_arc_sine", or "sqrt_arc_sine"). The +sqrt_arc_sine" has generaally proven most effective.

A list consisting of an OTU table with percentages, an OTU table with transformed data, and a vector of treatment groups.

jfq3/QsRutils documentation built on Jan. 18, 2021, 12:40 a.m.