plotExchangeSpectra_indel: Plot the spectra of nucleotide exchanges of INDELs

Description Usage Arguments Value Examples

Description

Plots the spectra of nucelotides in their triplet contexts. If several columns are present in the input data frame, the spectra are ploted for every column seperatly. The function is only suitable for a INDEL spectra and for SNV representation the funtion plotExchangeSpectra should be used.

Usage

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plotExchangeSpectra_indel(
  in_catalogue_df,
  in_colour_vector = NULL,
  in_show_indel = FALSE,
  in_show_axis_title = FALSE,
  in_scales = "free_x",
  in_refLine = NULL,
  in_refAlpha = 0.5,
  in_background = NULL
)

Arguments

in_catalogue_df

Numerical data frame encoding the exchange spectra to be displayed, either a mutational catalogue V or a signatures matrix W

in_colour_vector

Specifies the colours of the INDELs if non-null

in_show_indel

Whether or not to show the INDEL names on the x-axis

in_show_axis_title

Whether or not to show the name of the y-axis

in_scales

Argument passed on to facet_grid

in_refLine

If non-null, value on the y-axis at which a horizontal line is to be drawn

in_refAlpha

Transparency of the horizontal line if it is to be drawn

in_background

Option to provide a background theme, e.g. theme_grey

Value

The generated barplot - a ggplot2 plot

Examples

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slw287r/yapsa documentation built on June 7, 2020, 12:46 a.m.