Nucleotide frequency plot — tx_plot

Generates a ggplot barplot using the nucleotide frequency counts in data.tables generated by tx_covNucFreqDT().

Usage

tx_plot_nucFreq(
  DT,
  gene,
  txRange = 1:nrow(DT),
  removeInsert = TRUE,
  show_yLabels = TRUE,
  bar_border = TRUE,
  showLegend = TRUE
)

DT: data.table. Input data from which to generate the plot
gene: character. Name of the gene in DT which wants to be plotted.
txRange: integer. Range in data to be used, 'txcoor' column is used to delimit this range in the data.table.
removeInsert: logical. Removes counts from insert reads, which do not call for a nucleotide, are just the gap between read1 and read2.
show_yLabels: logical. If set to FALSE hides the y axis labels.
bar_border: logical. If set to FALSE removes the border of the bars.
showLegend: logical. If set to FALSE does not renger a legend.

ggplot