gpatterns.smoothScatter: Plots smoothScatter of average methylation of two tracks

In tanaylab/gpatterns: Single Molecule Methylation Patterns Analysis Suite

Plots smoothScatter of average methylation of two tracks

Description

Plots smoothScatter of average methylation of two tracks

Usage

gpatterns.smoothScatter(
  samples,
  avgs = NULL,
  fig_ofn = NULL,
  sample_names = NULL,
  width = 300,
  height = 300,
  color.pal = .smooth_scatter_pal2,
  device = "png",
  title_text = NULL,
  add_n = TRUE,
  min_cov = NULL,
  min_samples = 2,
  iterator = NULL,
  ...
)

Arguments

samples	a vector of 2 sample names as present in 'samp' filed of avgs, or track names if avgs is NULL
avgs	pre-computed intervals set with average methylation, output of gpatterns.get_avg_meth. if NULL, gpatterns.get_avg_meth(tracks=samples, ...) would be called. Note that you using this option together with additional parameters to smoothScatter would produce warnings.
fig_ofn	figure filename. if NULL figure would be plotted on the current device
sample_names	names for the two tracks to plot as the axis labels. if NULL the sample names would be used.
width	plot width
height	plot height
color.pal	color pallete
device	function to open a device if fig_ofn is not NULL. default: 'png'
title_text	title text
add_n	add 'n = number_of_observations' to the title
min_cov	minimal coverage for iterator interval.
...	other parameters for smoothScatter / gpatterns.get_avg_meth.

Value

None

tanaylab/gpatterns documentation built on May 15, 2023, 6:23 p.m.