dot-calculateStrandCoverage: Calculate the strand information based on coverage

In UofABioinformaticsHub/rnaCleanR: Calculate strandness information of a bam file

Calculate the strand information based on coverage

Description

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

Usage

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

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

UofABioinformaticsHub/rnaCleanR documentation built on Feb. 14, 2025, 6:36 p.m.