CuffFeatureSet-class {cummeRbund} | R Documentation

## Class "CuffFeatureSet"

### Description

A 'data' container class for all FPKM, annotation, and differential expression data for a set of features (genes, isoforms, TSS, CDS).

### Objects from the Class

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

### Slots

`annotation`:

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

`fpkm`:

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

`diff`:

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

`repFpkm`:

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

`count`:

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

`genome`:

  Object of class `"character"` ~~

### Methods

diffData

  `signature(object = "CuffFeatureSet")`: ...

featureNames

  `signature(object = "CuffFeatureSet")`: ...

features

  `signature(object = "CuffFeatureSet")`: ...

fpkmMatrix

  `signature(object = "CuffFeatureSet")`: ...

repFpkmMatrix

  `signature(object = "CuffFeatureSet")`: ...

countMatrix

  `signature(object = "CuffFeatureSet")`: ...

samples

  `signature(object = "CuffFeatureSet")`: ...

length

  `signature(object = "CuffFeatureSet")`: ...

### Accessors

annotation

  `signature(object="CuffFeatureSet")`: Access @annotation slot

### Note

None.

### Author(s)

Loyal A. Goff

### References

None.

### See Also

`CuffGeneSet`

### Examples

    showClass("CuffFeatureSet")

[Package cummeRbund version 2.34.0 Index]