getNonAnnotatedRegions {waveTiling}R Documentation

Get non-annotated regions

Description

Extract the significant regions found in the wavelet-based transcriptome analysis that don't show any overlap with the existing annotation.

Usage

getNonAnnotatedRegions(fit,inf,biomartObj)

Arguments

fit

object of class WfmFit

inf

object of class WfmInf

biomartObj

object of class TxDb representing an annotation database generated from BioMart.

Value

GRangesList object with the non-annotated regions. The first element gives the regions with no annotation overlap on the strand used in the analysis, the second element gives the regions with no annotation overlap on both strands.

Author(s)

Kristof De Beuf <kristof.debeuf@ugent.be>

Examples

  library(waveTilingData)
  library(TxDb.Athaliana.BioMart.plantsmart22)
  data(leafdevFit)
  data(leafdevInfCompare)
  nonAnnoCompare <- getNonAnnotatedRegions(fit=leafdevFit,inf=leafdevInfCompare,	biomartObj=TxDb.Athaliana.BioMart.plantsmart22)
  nonAnnoCompare

[Package waveTiling version 1.26.0 Index]