r3Cseq (version 1.18.0)

getReadCountPerWindow: count reads per window size

Description

Counts the number of reads from 3C-Seq data per each window size

Usage

getReadCountPerWindow(object,windowSize=5e3,nFragmentExcludedReadsNearViewpoint=2,mode=c("non-overlapping", "overlapping"))

Arguments

object

r3Cseq object

windowSize

Numeric. non-overlapping window size for counting reads (default=5e3)

nFragmentExcludedReadsNearViewpoint

Numeric. The number of excluded fragments around the viewpoint, reads found in these fragments will be removed from the analysis (default=2)

mode

character. The window-based modes analysis (default="non-overlapping")

Value

The RangedData represents the number of reads per each window size

See Also

getReadCountPerRestrictionFragment,

Examples

  #See the vignette