summary,GSEATests-method {MAST} | R Documentation

## Summarize gene set enrichment tests

### Description

Returns a `data.table` with one row per gene set. This `data.table` contains columns:

set

  name of gene set

cond_Z

  Z statistic for continuous component

cont_P

  wald P value

cont_effect

  difference in continuous regression coefficients between null and test sets (ie, the numerator of the Z-statistic.)

disc_Z

  Z statistic for discrete

disc_P

  wald P value

disc_effect

  difference in discrete regression coefficients between null and test sets.

combined_Z

  combined discrete and continuous Z statistic using Stouffer's method

combined_P

  combined P value

combined_adj

  FDR adjusted combined P value

### Usage

    ## S4 method for signature 'GSEATests'
    summary(object, ...)

### Arguments

`object` | A `GSEATests` object
`...` | passed to `calcZ`

### Value

`data.table`

### See Also

gseaAfterBoot

### Examples

    ## See the examples in gseaAfterBoot
    example(gseaAfterBoot)

[Package MAST version 1.4.1 Index]