topRomer {limma} | R Documentation

## Top Gene Set Testing Results from Romer

### Description

Extract a matrix of the top gene set testing results from the romer output.

### Usage

    topRomer(x,n=10,alternative="up")

### Arguments

`x` | matrix which is the output from romer.
`n` | number of top gene set testing results to be extracted.
`alternative` | character which can be one of the three possible alternative p values: "up", "down" or "mixed".

### Details

This function takes the results from romer and returns a number of top gene set testing results that are sorted by the p values.

### Value

matrix, which is sorted by the "up", "down" or "mixed" p values, with the rows corresponding to estimated p-values for the top number of gene sets and the columns corresponding to the number of genes for each gene set and the alternative hypotheses mixed, up, down.

### Author(s)

Gordon Smyth and Yifang Hu

### See Also

`romer`

There is a topic page on 10.GeneSetTests.

### Examples

    # See romer for examples

[Package limma version 3.38.3 Index]