plotHelper: Helper function for coverage plots

In ORFik: Open Reading Frames in Genomics

Description

Should only be used internally

Usage

plotHelper(
  coverage,
  df,
  outdir,
  scores,
  returnCoverage = FALSE,
  title = "coverage metaplot",
  colors = c("skyblue4", "orange"),
  plotFunction = "windowCoveragePlot"
)

Arguments

coverage	a data.table containing at least columns (count/score, position), it is possible to have additionals: (genes, fraction, feature)
df	an ORFik experiment
outdir	directory to save to (default: NULL, no saving)
scores	scoring function (default: c("sum", "zscore")), see ?coverageScorings for possible scores.
returnCoverage	(defualt: FALSE), return the ggplot object (TRUE) or NULL (FALSE).
title	Title to give plot
colors	Which colors to use, default auto color from function experiment.colors, new color per library type. Else assign colors yourself.
plotFunction	Which plot function, default: windowCoveragePlot

Value

NULL (or ggplot object if returnCoverage is TRUE)

ORFik documentation built on March 27, 2021, 6 p.m.