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, consensusClustersGR, genomeName, inputFilesType, inputFiles, librarySizes, sampleLabels, tagClusters

Examples

seqNameTotalsSE(exampleCAGEexp)


[Package CAGEr version 1.34.0 Index]