cnFreq_buildMain {GenVisR}R Documentation

Construct CN frequency plot

Description

given a data frame construct a plot to display proportions of losses and gains across the genome

Usage

cnFreq_buildMain(x, plotType, dummy_data, plot_title = NULL,
  CN_low_colour = "#002EB8", CN_high_colour = "#A30000", x_lab_size = 12,
  y_lab_size = 12, facet_lab_size = 10, plotLayer = NULL)

Arguments

x

object of class data frame containing columns chromosome, start, end, gain, and loss

plotType

character string to determine whether to plot proportions or frequencies

dummy_data

Object of class data frame containing columns chromosome, start, end, cn, sample. Used for defining chromosome boundaries

plot_title

character string for title of plot

CN_low_colour

character string specifying low value of colour gradient

CN_high_colour

character string specifying high value of colour gradient

x_lab_size

integer specifying the size of the X label

y_lab_size

integer specifying the size of the Y label

facet_lab_size

integer specifying the size of the faceted labels

plotLayer

Additional layer to be plotted, can be a theme but must be a ggplot layer

Value

ggplot object


[Package GenVisR version 1.8.1 Index]