plotdata: This function visualizes the dataframe yielded by function...

In Methplot: Visualize the methylation patterns

Description

Prerequisites: You need to install packages: "ggplot2", "grid", and "reshape"

Usage

plotdata(x, x.title, condition, n, legendpos = "null")

Arguments

x	the dataframe name that is in the format of "getdata" output
x.title	the title of the output plot
condition	a character vector that gives the sample list that you want to plot. These samples will be merged together by adding up the read numbers to yield one plot.
n	the number of CpG sites in this region.
legendpos	the position of the legend. Default: "null" ("left", "right", "bottom", "top", or two-element numeric vector)

Value

Output plot: Rows indicate reads and are presented in percentage (y axis), showing whether each of CpG sites (x axis) in the target region is methylated (light green) or demethylated (dark green). Reads are sorted so that those with no demethylated positions are at the bottom, and those with most demethylated positions are at the top.

Author(s)

Xin Yang [e-mail]

Examples

data(mydata)
plotdata(mydata, x.title="Methylation Plot", condition="P1_A1", n=10, legendpos="right")

Methplot documentation built on May 1, 2019, 7:50 p.m.