expressionClasses: Extract labels of expression classes

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

Description

Retrieves labels of expression classes of either individual CTSSs or consensus clusters from a CAGEset object.

Usage

expressionClasses(object, what = c("CTSS", "consensusClusters"))

## S4 method for signature 'CAGEset'
expressionClasses(object, what = c("CTSS",
  "consensusClusters"))

## S4 method for signature 'CAGEexp'
expressionClasses(object, what = c("CTSS",
  "consensusClusters"))

Arguments

object	A CAGEset object.
what	Which level of expression clustering should be used. Can be either "CTSS" to extract labels of expression classes of individual CTSSs or "consensusClusters" to extract labels of expression classes of consensus clusters.

Value

Returns character vector of labels of expression classes. The number of labels matches the number of expression clusters returned by getExpressionProfiles function.

See Also

getExpressionProfiles plotExpressionProfiles extractExpressionClass

Examples

exprClasses <- expressionClasses(exampleCAGEset, what = "CTSS")
exprClasses

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