countMatrix {cummeRbund} | R Documentation

## countMatrix

### Description

Retrieve count values as gene by condition matrix

### Usage

    ## S4 method for signature 'CuffData'
    countMatrix(object,fullnames=FALSE,sampleIdList)
    ## S4 method for signature 'CuffData'
    repCountMatrix(object,fullnames=FALSE,repIdList)

### Arguments

`object` | An object of class ('CuffData','CuffFeatureSet','CuffGeneSet','CuffGene',or 'CuffFeature')
`fullnames` | A logical value whether or not to concatenate gene_short_name and tracking_id values (easier to read labels)
`sampleIdList` | A vector of sample names to subset the resulting matrix.
`repIdList` | A vector of replicate names to subset the resulting replicate matrix.

### Details

None.

### Value

A feature x condition matrix of count values.

### Note

None

### Author(s)

Loyal A. Goff

### References

None.

### Examples

    	data(sampleData)
    	countMatrix(sampleGeneSet)
    	repCountMatrix(sampleGeneSet)

[Package cummeRbund version 2.28.0 Index]