CTSSnormalizedTpmDF {CAGEr} | R Documentation

## Extracting normalized CAGE signal for TSSs from CAGEr objects

### Description

Extracts the normalized CAGE signal for all detected TSSs in all CAGE datasets from `CAGEexp` objects.

### Usage

    CTSSnormalizedTpmDF(object)

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

    CTSSnormalizedTpmGR(object, samples)

    ## S4 method for signature 'CAGEexp'
    CTSSnormalizedTpmGR(object, samples)

### Arguments

`object` | A `CAGEexp` object.
`samples` | The name of sample(s) as reported by `sampleLabels(object)`, or the number identifying the sample(s).

### Value

`CTSSnormalizedTpmDF` returns a `DataFrame` of normalised expression values.

### Author(s)

Vanja Haberle

Charles Plessy

### See Also

`normalizeTagCount`

Other CAGEr accessor methods: `CTSSclusteringMethod()`, `CTSScoordinatesGR()`, `CTSScumulativesTagClusters()`, `CTSStagCountDF()`, `GeneExpDESeq2()`, `GeneExpSE()`, `consensusClustersGR()`, `expressionClasses()`, `genomeName()`, `inputFilesType()`, `inputFiles()`, `librarySizes()`, `sampleLabels()`, `seqNameTotalsSE()`, `tagClustersGR()`

### Examples

    CTSSnormalizedTpmDF(exampleCAGEexp)

    CTSSnormalizedTpmGR(exampleCAGEexp, 1)
    exampleCAGEexp |> CTSSnormalizedTpmGR("all")

[Package CAGEr version 2.0.2 Index]