CuffGeneSet-class {cummeRbund} | R Documentation

## Class "CuffGeneSet"

### Description

A 'data' container class for all FPKM, annotation, and differential expression data (an associated features) for a given set of genes.

### Objects from the Class

Objects can be created by calls of the form `new("CuffGeneSet", annotation, fpkm, diff, ...)`.

### Slots

`ids`:

  Object of class `"character"` ~~

`isoforms`:

  Object of class `"CuffFeatureSet"` ~~

`TSS`:

  Object of class `"CuffFeatureSet"` ~~

`CDS`:

  Object of class `"CuffFeatureSet"` ~~

`promoters`:

  Object of class `"CuffFeatureSet"` ~~

`relCDS`:

  Object of class `"CuffFeatureSet"` ~~

`splicing`:

  Object of class `"CuffFeatureSet"` ~~

`annotation`:

  Object of class `"data.frame"` ~~

`fpkm`:

  Object of class `"data.frame"` ~~

`diff`:

  Object of class `"data.frame"` ~~

### Extends

Class `"CuffFeatureSet"`, directly.

### Methods

No methods defined with class "CuffGeneSet" in the signature.

### Accessors

genes

  `signature(object = "CuffGeneSet")`: Access @genes slot

isoforms

  `signature(object = "CuffGeneSet")`: Access @isoforms slot

TSS

  `signature(object = "CuffGeneSet")`: Access @TSS slot

CDS

  `signature(object = "CuffGeneSet")`: Access @CDS slot

promoters

  `signature(object = "CuffGeneSet")`: Access @promoters slot

relCDS

  `signature(object = "CuffGeneSet")`: Access @relCDS slot

splicing

  `signature(object = "CuffGeneSet")`: Access @splicing slot

### Note

None.

### Author(s)

Loyal A. Goff

### References

None.

### See Also

`CuffFeatureSet`

### Examples

    showClass("CuffGeneSet")

[Package cummeRbund version 2.28.0 Index]