sva_tidiers: Tidying methods for a sva list

In biobroom: Turn Bioconductor objects into tidy data frames

Description

These are methods for turning a sva list, from the sva package, into a tidy data frame. tidy returns a data.frame of the estimated surrogate variables, glance returns a data.frame of the posterior probabilities, and glance returns a data.frame with only the number of surrogate variables.

Usage

augment_sva(x, data, ...)

tidy_sva(x, addVar = NULL, ...)

glance_sva(x, ...)

Arguments

x	sva list
data	Original data
...	extra arguments (not used)
addVar	add additional coefficients to the estimated surrogate variables

Value

All tidying methods return a data.frame without rownames. The structure depends on the method chosen.

augment returns one row per gene. It always contains the columns

pprob.gam	Posterior probability each gene is affected by heterogeneity
pprob.b	Posterior probability each gene is affected by model

tidy returns the estimate surrogate variables.

glance returns the estimate surrogate variables.

biobroom documentation built on Nov. 8, 2020, 5:20 p.m.