pf.BINprojection: Projects phylofactored data onto bins defined by the factors...

In reptalex/phylofactor: phylofactor

Projects phylofactored data onto bins defined by the factors 1:factor

Description

Projects phylofactored data onto bins defined by the factors 1:factor

Usage

pf.BINprojection(PF, factor = PF$nfactors, taxonomy = NULL,
  common.name = F, uniques = T, prediction = F, rel.abund = F,
  minimum.tax = "p")

Arguments

PF	phylofactor object. See PhyloFactor
factor	integer between 0 and PF$nfactors
taxonomy	Optional taxonomy. If input, the list of OTUs in each bin will be the taxonomic names, not the OTU IDs.
common.name	Logical. If input taxonomy, will indicate whether to trim taxonomic list to the longest common prefix of each bin.
uniques	Logical. If input taxonomy, will indicate whether to trim the taxonomic list to the unique names.
prediction	Logical. If true, will output the predictions for each bin instead of the observations.
rel.abund	Logical. If true, will return the total relative abundances in the bin. Default, F, returns the geometric mean of the relative abundances of each bin
minimum.tax	minimum taxonomic description - see OTUtoTaxa

Value

Returns list containing the compositional dataset formed by the bins and the list of OTUs in each bin.

reptalex/phylofactor documentation built on Feb. 28, 2024, 3:19 p.m.