Export consensus cluster expression data for DESeq2 analysis

Description

Creates a DESeqDataSet using the consensus cluster expression data in the experiment slot consensusClusters and the sample metadata of the CAGEexp object. The formula must be built using factors already present in the sample metadata.

Usage

consensusClustersDESeq2(object, design)

## S4 method for signature 'CAGEset'
consensusClustersDESeq2(object, design)

## S4 method for signature 'CAGEexp'
consensusClustersDESeq2(object, design)

Arguments

Author(s)

Charles Plessy

See Also

DESeqDataSet in the DESeq2 package.

Other CAGEr clusters functions: CTSSclusteringMethod, CTSScumulativesTagClusters, CustomConsensusClusters, aggregateTagClusters, clusterCTSS, consensusClustersGR, cumulativeCTSSdistribution, plotInterquantileWidth, quantilePositions, tagClusters

Examples

exampleCAGEexp$group <- c("a", "a", "b", "b", "a")
consensusClustersDESeq2(exampleCAGEexp, ~group)