edgeR additional methods {easyRNASeq} | R Documentation

## Extension for the edgeR package

### Description

This method extends the edgeR package by offering the functionality to plot the effect of the normalization factor.

### Usage

    ## S4 method for signature 'DGEList,character,character'
    plotNormalizationFactors(
      obj = DGEList(),
      cond1 = character(1),
      cond2 = character(1)
    )

### Arguments

`obj` | An object of class `DGEList`
`cond1` | A character string describing the first condition
`cond2` | A character string describing the second condition

### Value

none

### Author(s)

Nicolas Delhomme

### Examples

    	## Not run:
    	## create the object
    	dgeList <- DGEList(counts,group)
    	## calculate the sie factors
    	dgeList <- calcNormFactors(dgeList)
    	## plot them
    	apply(combn(rownames(dgeList$samples),2),
    		2,
    		function(co,obj){plotNormalizationFactors(obj,co[1],co[2])},dgeList)

    ## End(Not run)

[Package easyRNASeq version 2.30.0 Index]