getReadCountPerWindow: count reads per window size

In supatt-lab/r3Cseq: Analysis of Chromosome Conformation Capture and Next-generation Sequencing (3C-seq)

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

Author(s)

S. Thongjuea

See Also

getReadCountPerRestrictionFragment,

Examples

  #See the vignette	

supatt-lab/r3Cseq documentation built on May 6, 2019, 4:34 p.m.