CTSSclusteringMethod: Get /set CTSS clustering method

In CAGEr: Analysis of CAGE (Cap Analysis of Gene Expression) sequencing data for precise mapping of transcription start sites and promoterome mining

Description

Returns or sets the name of the method that was used make tag clusters from the CTSSs of a CAGEr object.

Usage

CTSSclusteringMethod(object)

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

## S4 method for signature 'GRangesList'
CTSSclusteringMethod(object)

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

CTSSclusteringMethod(object) <- value

## S4 replacement method for signature 'CAGEset'
CTSSclusteringMethod(object) <- value

## S4 replacement method for signature 'GRangesList'
CTSSclusteringMethod(object) <- value

## S4 replacement method for signature 'CAGEexp'
CTSSclusteringMethod(object) <- value

Arguments

object	A CAGEr object.
value	character

Author(s)

Vanja Haberle

Charles Plessy

See Also

clusterCTSS

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

Other CAGEr clusters functions: CTSScumulativesTagClusters, CustomConsensusClusters, aggregateTagClusters, clusterCTSS, consensusClustersDESeq2, consensusClustersGR, cumulativeCTSSdistribution, plotInterquantileWidth, quantilePositions, tagClusters

Examples

CTSSclusteringMethod(exampleCAGEset)
CTSSclusteringMethod(exampleCAGEexp)

CAGEr documentation built on Jan. 17, 2021, 2 a.m.