augment_sva {biobroom} | R Documentation

## Tidying methods for a sva list

### 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.

[Package biobroom version 1.10.1 Index]