PlotMutationTypes: PlotMutationTypes

In cgab-ncc/FIREVAT: FIREVAT, FInding REliable Variants without ArTifacts

PlotMutationTypes

Description

Plots a horizontal barplot of mutation types

Usage

PlotMutationTypes(
  mutation.types = c("C>A", "C>G", "C>T", "T>A", "T>C", "T>G"),
  mutation.types.values,
  mutation.types.colors,
  max.y.val,
  title,
  convert.to.percentage = T,
  show.legend = T,
  font.size.small = 8,
  font.size.med = 14,
  plot.margin = unit(c(0.5, 0.5, 0.5, 0.5), "cm")
)

Arguments

mutation.types	Mutation types; Default = c("C>A", "C>G", "C>T", "T>A", "T>C", "T>G")
mutation.types.values	Mutation count for each mutation type
mutation.types.colors	A color vector for indicating mutation types
max.y.val	y axis maximum value
title	Plot title
convert.to.percentage	if True convert y values to percentage (x 100); Default = T
show.legend	If True, show legend; Default = T
font.size.small	Small font size; Default = 8
font.size.med	Medium font size; Default = 14
plot.margin	Margin vector for drawing plot; Default = unit(c(0.5, 0.5, 0.5, 0.5), "cm"))

Value

A ggplot object

Examples

## Not run: 
p <- PlotMutationTypes(mutation.types = c("C>A", "C>G", "C>T", "T>A", "T>C", "T>G"),
                  mutation.types.values = c(0.3, 0.3, 0.1, 0.1, 0.1, 0.1),
                  mutation.types.colors = TriNuc.Mutation.Type.Hex.Colors,
                  max.y.val = 0.5,
                  convert.to.percentage = T,
                  show.legend = T,
                  font.size.small = 8,
                  font.size.med = 14,
                  plot.margin = unit(c(0.5, 0.5, 0.5, 0.5), "cm"))
print(p)

## End(Not run)

cgab-ncc/FIREVAT documentation built on Nov. 19, 2022, 5:55 p.m.