plotFPWM: A function to plot the Forked Position Weight Matrix

In rtmag/forkedTF: Creation of Forked-Position Weight Matrices, a graph model of multiple PWMs.

Description

This function plots FPWMs.

Usage

plotFPWM(
  FPWM,
  Methylation = TRUE,
  height = 12,
  width = 7,
  textSize = 7,
  scaleBarplot = TRUE,
  legend = c(0.5, 0.95),
  pdfName = "plotFPWM.pdf"
)

Arguments

FPWM	[FPWM S4 object].
Methylation	[logical] If it set on TRUE, methylation level will be drawn as barplot. Default: TRUE.
height	[numeric] Height (inches) of the pdf output. Default: 12.
width	[numeric] Width (inches) of the pdf output. Default: 7.
textSize	[numeric] Size of the text on the plot. Default: 7.
scaleBarplot	[logical] TRUE to scale the height of the barplot across all the forked motifs. FALSE will scale per-motif. Default: TRUE.
legend	[numeric Vector] Coordinates where the methylation legend will be drawn. Write "none" to prevent the function from ploting the legend. Default: c(0.5,0.95)
pdfName	[character] Name for the output pdf.

Value

Plots the FPWM into a PDF file.

Examples

fpwm <- createFPWM(mainTF ="CEBPB",partners = c("ATF4","ATF7","ATF3","JUND","FOS","CEBPD"), cell = "K562", forkPosition = 5)
plotFPWM(fpwm, pdfName="fpwm_plot.pdf")

rtmag/forkedTF documentation built on Nov. 5, 2021, 10 a.m.