lolliplot_buildMain: Construct Lolliplot

In GenVisR: Genomic Visualizations in R

Description

Construct Lolliplot given gene and mutation data

Usage

lolliplot_buildMain(
  gene_data,
  length,
  mutation_observed,
  mutation_observed2,
  fill_value,
  label_column,
  plot_text_angle,
  plot_text_size,
  point_size,
  gene_colour,
  sequence_data,
  plot_sidechain = FALSE,
  layers = NULL,
  paletteA = NULL,
  paletteB = NULL
)

Arguments

gene_data	object of class dataframe giving protien domain and gene information
length	integer specifying the length of the protien in amino acids
mutation_observed	object of class data frame specifying mutations observed in input file
mutation_observed2	optional object of class data frame specifying additional mutations for bottom track
fill_value	character string specifying the column on which to colour mutation points
label_column	character string specifying the column containing the labels to attach to mutation points
plot_text_angle	numeric value specifying the angle of text to be plotted
plot_text_size	numeric value specifying the size of text to be plotted
point_size	numeric value specigying the size of mutation points
gene_colour	color to shade plotted gene
sequence_data	object of class dataframe giving AA sequence, sidechain, and coord required if plot_sidechain is true
plot_sidechain	boolean specifying whether to plot the AA sidechain instead of domain information
layers	additional ggplot2 layers to plot
paletteA	Character vector specifying colours for gene features
paletteB	Character vector specifying colours for lolli features

Value

a ggplot2 object

GenVisR documentation built on Dec. 28, 2020, 2 a.m.