mergeSegs: mergeSegs

In chrisamiller/copyCat: Find regions of genomic copy number loss and gain from short reads

Description

merges segments if they are adjacent and both gains or losses (useful for some types of plotting)

Usage

  mergeSegs(segs,rdo)

Arguments

segs	a data frame that is the result of calling rd.cnSegments
rdo	a readDepth object created with new("rdObject")

Value

a data frame containing merged segments of CN gain and loss and all intervening normal segments

See Also

'rd.cnSegments'

Examples

  ##get regions of CN gain and loss
  #  segs <- rd.cnSegments(x)

  ##extract just the gains and losses
  #  mergedSegs <- mergeSegs(segs,x)

chrisamiller/copyCat documentation built on July 20, 2021, 12:59 a.m.