seqNameTotalsSE {CAGEr} | R Documentation

## Retreives the SummarizedExperiment containing chromosome expression totals.

### Description

Get or set a `SummarizedExperiment` summarising whole-chromosome expression levels in the experiment slot `seqNameTotals` and the sample metadata of the `CAGEexp` object.

### Usage

    seqNameTotalsSE(object)

    ## S4 method for signature 'CAGEset'
    seqNameTotalsSE(object)

    ## S4 method for signature 'CAGEexp'
    seqNameTotalsSE(object)

    seqNameTotalsSE(object) <- value

### Arguments

`object` | A `CAGEexp` object.
`value` | A SummarizedExperiment object where rows represent reference sequences such as chromosomes.

### Author(s)

Charles Plessy

### See Also

summariseChrExpr

Other CAGEr accessor methods: `CTSSclusteringMethod`, `CTSScoordinates`, `CTSScumulativesTagClusters`, `CTSSnormalizedTpm`, `CTSStagCountTable`, `CTSStagCount`, `GeneExpDESeq2`, `GeneExpSE`, `genomeName`, `inputFilesType`, `inputFiles`, `librarySizes`, `sampleLabels`, `tagClusters`

### Examples

    seqNameTotalsSE(exampleCAGEexp)

[Package CAGEr version 1.22.3 Index]