getSigGenes: Get significant genes
In waveTiling: Wavelet-Based Models for Tiling Array Transcriptome Analysis

Description Usage Arguments Value Author(s) Examples

Extract the annotated regions (often genes) that overlap with the significant regions found in the wavelet-based transcriptome analysis.

1	getSigGenes(fit,inf,biomartObj)

`fit`	object of class `WfmFit`
`inf`	object of class `WfmInf`
`biomartObj`	object of class TranscriptDb representing an annotation database generated from BioMart.

GRangesList object. In the elementMetadata of the GRanges elements percOverGene gives the percentage of basepair overlap of the annotated regions by the detected significant region in the analysis; percOverReg gives the percentage of basepair overlap of the detected singificant region in the analysis with the annotated region; totPercOverGene gives per annotated region the total percentage of basepair overlap by all detected significant regions in the analysis that map to that annotated region.

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

  library(waveTilingData)
  library(TxDb.Athaliana.BioMart.plantsmart12)
  data(leafdevFit)
  data(leafdevInfCompare)
  sigGenesCompare <- getSigGenes(fit=leafdevFit,inf=leafdevInfCompare,	biomartObj=TxDb.Athaliana.BioMart.plantsmart12)
  head(sigGenesCompare[[2]])