getNonAnnotatedRegions: Get non-annotated regions

In waveTiling: Wavelet-Based Models for Tiling Array Transcriptome Analysis

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 <[e-mail]>

Examples

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

waveTiling documentation built on Oct. 31, 2019, 9:23 a.m.