buildConfMat: Build confounder design matrices with and without intercepts

Description Usage Arguments Value

View source: R/buildConfMat.R

Description

Build confounder design matrices with and without intercepts

Usage

1
buildConfMat(confounders)

Arguments

confounders

A dataframe of confounding variables #' For the preliminary trimming, we do not include an intercept, but we do include all the levels of the factors using contrasts=FALSE: we want to do the trimming in every subgroup, so no hidden reference levels For the filtering we just use a model with an intercept and treatment coding, here the interest is only in adjusting the offset

Value

a list with components

confModelMatTrim

A confounder matrix without intercept, with all levels of factors present. This will be used to trim out taxa that have zero abundances in any subgroup defined by confounders

confModelMat

A confounder matrix with intercept, and with reference levels for factors absent. This will be used to fit the model to modify the independence model, and may include continuous variables


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

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