plotSmoothedClassMeans: Plot smoothed class means from multiple repeats

In jsemple19/EMclassifieR: Classify DSMF data using the Expectation Maximisation algorithm

Plot smoothed class means from multiple repeats

Description

Plot loess-smoothed class means from multiple repeats of EM.

Usage

plotSmoothedClassMeans(
  allClassMeans,
  xRange = c(-250, 250),
  facet = FALSE,
  title = "Smoothed class means",
  myXlab = "CpG/GpC position",
  featureLabel = "TSS",
  baseFontSize = 12
)

Arguments

allClassMeans	A long data frame of methylation or bincount values with columns for position, methylation frequency (methFreq), class and replicate.
xRange	A vector of the first and last coordinates of the region to plot (default is c(-250,250))
facet	Plot mean profiles separately as a facet_wrap plot (default=FALSE)
title	A title for the plot (default is "Class means")
myXlab	A label for the x axis (default is "CpG/GpC position")
featureLabel	A label for a feature you want to plot, such as the position of the TSS (default="TSS")
baseFontSize	The base font for the plotting theme (default=12 works well for 4x plots per A4 page)

Value

Returns a ggplot2 object

jsemple19/EMclassifieR documentation built on Aug. 12, 2022, 2:57 p.m.