selectProbesFromFilterOverlap: select probes from 'MapFilterProbe' object

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

Description

Extract the probe indices from a MapFilterProbe object that map to a region between two specified genomic positions

Usage

selectProbesFromFilterOverlap(object, chromosome, strand=c("forward","reverse"), minPos=min(getPosition(object)), maxPos=max(getPosition(object)))

Arguments

object	object of class MapFilterProbe
chromosome	chromosome
strand	strand
minPos	minimum genomic position
maxPos	maximum genomic position

Value

A list of 2 elements is returned. The first element "selection" gives the probe indices in the filtered MapFilterProbe object; the second element "selectionInit" gives the probe indices in the original WaveTilingFeatureSet object.

Author(s)

Kristof De Beuf <[e-mail]>

Examples

  library(waveTilingData)
  data(leafdevMapAndFilterTAIR9)
  tt <- selectProbesFromFilterOverlap(leafdevMapAndFilterTAIR9,chromosome=1,strand="forward",minPos=10000,maxPos=15000)
  sel <- tt$selection
  length(sel)
  head(sel)
  selfil <- tt$selectionFiltered
  length(selfil)
  head(selfil)

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