| GeneExpDESeq2 {CAGEr} | R Documentation |
Creates a DESeqDataSet using the gene expression
data in the experiment slot geneExpMatrix and the sample metadata
of the CAGEexp object. The formula must be built using factors
already present in the sample metadata.
GeneExpDESeq2(object, design) ## S4 method for signature 'CAGEset' GeneExpDESeq2(object, design) ## S4 method for signature 'CAGEexp' GeneExpDESeq2(object, design)
object |
A |
design |
A formula for the DESeq2 analysis. |
Charles Plessy
DESeqDataSet in the DESeq2 package.
Other CAGEr gene expression analysis functions: CTSStoGenes,
ranges2genes
Other CAGEr accessor methods: CTSSclusteringMethod,
CTSScoordinates,
CTSScumulativesTagClusters,
CTSSnormalizedTpm,
CTSStagCountTable,
CTSStagCount, GeneExpSE,
consensusClustersGR,
genomeName, inputFilesType,
inputFiles, librarySizes,
sampleLabels,
seqNameTotalsSE, tagClusters
exampleCAGEexp$group <- factor(c("a", "a", "b", "b", "a"))
GeneExpDESeq2(exampleCAGEexp, ~group)