calculateStrandCoverage: Calculate the strand information based on coverage

In strandCheckR: Calculate strandness information of a bam file

Description

Calculate the coverage coming from '+'/'-' reads in all sliding wndows

Usage

calculateStrandCoverage(winPosAlignments, winNegAlignments, winWidth = 1000,
winStep = 100)

Arguments

winPosAlignments	a list that has a 'Coverage' field containing coverage coming from positive reads
winNegAlignments	a list that has a 'Coverage' field containing coverage coming from negative reads
winWidth	the length of the sliding window, 1000 by default.
winStep	the step length to sliding the window, 100 by default.

Value

a list of two vectors, containing a positive/negative coverage of the input positive/negative windows

strandCheckR documentation built on Nov. 8, 2020, 7:02 p.m.