getFeatures {cummeRbund} | R Documentation

## getFeatures

### Description

Primary accessor from a CuffSet object to retrieve all related information for >1 (MANY) given FEATURES, indexed by tracking id.

### Usage

    ## S4 method for signature 'CuffSet'
    getFeatures(object, featureIdList, sampleIdList=NULL,level='isoforms')

### Arguments

`object` | An object of class 'CuffSet' (Primary 'pointer' object for Cufflinks data).
`featureIdList` | A vector of 'isoform_id', 'TSS_group_id', or 'CDS_id' to identify which features for which you would like to retrieve all information.
`sampleIdList` | A vector of sample names used to subset or re-order samples in returned object
`level` | Feature level to be queried for significance (must be one of c('isoforms','TSS','CDS')

### Details

None.

### Value

Returns a CuffFeatureSet object containing all related information for a given set of tracking_id values

### Note

Right now, this does not return an error if it cannot find a gene. (this is probably a bad thing...)

### Author(s)

Loyal A. Goff

### References

None.

### Examples

    	cuff<-readCufflinks(system.file("extdata", package="cummeRbund")) #Read cufflinks data and create master CuffSet object
    	sample.isoform.ids<-sample(featureNames(isoforms(cuff)),10)
    	myGene<-getFeatures(cuff,sample.isoform.ids) # Retrieve all information for a set of 10 sampled features.

[Package cummeRbund version 2.28.0 Index]