plotQuadPosition: Plot the abundance of Predicted G-quadruplexes Relative to a...

In RyDe4/ChIPanalyzer: ChIPAnalyzer

Plot the abundance of Predicted G-quadruplexes Relative to a Central Postiion

Description

Using a vector returned by getQuadCoveragePercentage(), plot the percentage of peaks that have G-quadruplexes across positions in sequences around the ChIP-SEQ peaks

Usage

plotQuadPosition(featurePercentages, title)

Arguments

featurePercentages	a numeric vector containing percentages such as a vector returned by getQuadCoveragePercentage()
title	a string specifying the title of the plot

Value

returns a plot of G-Quadruplex Abundance

Examples

path <- system.file("extdata", "MAZ_very_small_test.bed", package = "ChIPAnalyzer")
reports <- findQuads(bedPath = path,
 seqWidth = 200,
  assemblyVersion = "hg19")
qMatrix <- getQuadMatrix(quadReports = reports)
quadCoveragePercentage <- getQuadCoveragePercentage(quadMatrix = qMatrix)
plotQuadPosition(quadCoveragePercentage, "MAZ G-Quad Abundance")

RyDe4/ChIPanalyzer documentation built on Sept. 1, 2023, 9:18 a.m.