plotProfiles: Plot coverages along genome

In musikutiv/tsTools: Toolbox for Functional Genomics Data Processing in R

Plot coverages along genome

Description

Plot coverages along genome

Usage

plotProfiles(fstart, fend, fchr, profs, cols = c(), ann = NULL,
  ylabel = "coverage", ylims = list(), txdb, ftitle = NA, collapse = T,
  with.genes.highlited = c(), plot.labels = T, grid = F,
  with.average = F)

Arguments

fstart	start of the genomic window (bp)
fend	end of the genomic window (bp)
fchr	chromosome of the genomic window
profs	list of coverages to be plotted
cols	colors of the profiles
ann	a dataframe of annotations
ylims	list of ylimits for plotting the coverages. list(c(min, max), c(min, max))
txdb	a transcription database used for plotting gene models
ftitle	title of the plot
collapse	collapse gene models (default = TRUE)
with.genes.highlited	vector of gene ids that should be highlighted
plot.labels	plot labels lf gene (default = TRUE)
grid	plot grid (default = TRUE)
with.average	plot average (default = FALSE)
ylable	the label of the y axis

musikutiv/tsTools documentation built on July 25, 2024, 2:42 a.m.