trimOnConfounders: Trim based on confounders to avoid taxa with only zero counts

In combi: Compositional omics model based visual integration

Description

Trim based on confounders to avoid taxa with only zero counts

Usage

trimOnConfounders(confounders, data, prevCutOff, minFraction, n)

Arguments

confounders	a nxt confounder matrix
data	the data matrix
prevCutOff	a scalar between 0 and 1, the prevalence cut off
minFraction	a scalar between 0 and 1, each taxon's total abundance should equal at least the number of samples n times minFraction, otherwise it is trimmed
n	the number of samples Should be called prior to fitting the independence model

Value

A trimmed data matrix nxp'

combi documentation built on Nov. 8, 2020, 5:34 p.m.