augment_sva

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Tidying methods for a sva list

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.

Aliases
  • augment_sva
  • glance_sva
  • tidy_sva
Documentation reproduced from package biobroom, version 1.4.2, License: LGPL

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