filteredCTSSidx: The 'filteredCTSSidx()' function is in _CAGEr_ functions to...

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

The filteredCTSSidx() function is in CAGEr functions to retrieve the result of the flagLowExpCTSS() function in a safe way.

Description

The filteredCTSSidx() function is in CAGEr functions to retrieve the result of the flagLowExpCTSS() function in a safe way.

Usage

filteredCTSSidx(object)

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

Arguments

object

A CAGEexp object

Value

Returns the value of filteredCTSSidx in the row ranges of the tag count matrix experiment of the CAGEexp object, or Rle(TRUE) if it was NULL

See Also

Other CAGEr filter functions: flagByUpstreamSequences(), flagLowExpCTSS()

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

Examples

filteredCTSSidx(exampleCAGEexp)

charles-plessy/CAGEr documentation built on Oct. 27, 2024, 10:11 p.m.