plotGenoGAM: The pot function for a GenoGAM object

In GenoGAM: A GAM based framework for analysis of ChIP-Seq data

Description

This functions plots the fit of a given region and optionally the read counts from the GenoGAMDataSet object

Usage

plotGenoGAM(x, ggd = NULL, ranges = NULL, seqnames = NULL,
  start = NULL, end = NULL, scale = TRUE, cap = TRUE,
  log = FALSE, ...)

Arguments

x	A GenoGAM object
ggd	A GenoGAMDataSet object to plot raw counts
ranges	A GRanges object specifying a particular region
seqnames	A chromosome name. Together with start and end it is an alternative way ob selecting a region
start	The start of a region
end	The end of a region
scale	Logical, should all tracks be scaled to the same y-axis?
cap	If FALSE deactivates the cap that prevents to accidentaly plot a too larger area. The default cap is 1Mbp.
log	Should log values be plotted on the y-axis
...	Additional parameters that will be passed to the basic plot routine

Value

A plot of all tracks either using the ggplot2 or the base R framework

Author(s)

Georg Stricker [e-mail]

GenoGAM documentation built on Nov. 8, 2020, 7:45 p.m.