tx_plot_numeric: Numeric plot

In AngelCampos/txtools: An R package facilitating analysis of RNA modifications, structures, and interactions

Numeric plot

Description

Plot numeric variables in a txDT by gene and in a specified range

Usage

tx_plot_numeric(
  DT,
  gene,
  colVars,
  txRange = 1:nrow(DT),
  plot_type = "lineplot",
  lwd = 1,
  addPoints = TRUE,
  scales = "fixed",
  show_yLabels = TRUE,
  showLegend = TRUE
)

Arguments

DT	data.table. Input data from which to generate the plot
gene	character
colVars	character. Names of columns for which values will be extracted
txRange	integer. Range in data to be used, 'txcoor' column is used to delimit this range in the data.table.
plot_type	character. Type of plot to be output, either "lineplot" or "barplot".
lwd	numeric. Width of line (lineplot)
addPoints	logical. Add points to line (lineplot)
scales	character. Scales the y axis accordingly. Either 'fixed', by default, or 'free_y' (barplot)
show_yLabels	logical. If set to FALSE hides the y axis labels.
showLegend	logical. If set to FALSE does not renger a legend.

Details

If the range exceeds 250 bp the labels in the x-axis are not shown by default unless force_xAxis is set to TRUE.

Value

ggplot

Examples

# Barplot using data from the Use-case-#3
tx_plot_numeric(DT = sc_txDTL[[1]], gene = "18s", txRange = 100:150,
colVars = c("start_5p", "end_3p", "cov"), plot_type = "barplot", scales = "free")

# Lineplot using data from the Use-case-#3
tx_plot_numeric(DT = sc_txDTL[[1]], gene = "18s", txRange = 100:150,
colVars = c("start_5p", "end_3p", "cov"), plot_type = "lineplot")

AngelCampos/txtools documentation built on Sept. 16, 2024, 10:25 p.m.