bar_plot: bar_plot
In jonathandesmedt92/RtqpcR: RtqpcR facilitates analysis and QC of RT-qPCR data.

Description Usage Arguments Details

View source: R/functions.R

Create bar plot

bar_plot(
  qpcr,
  xvar = "Condition",
  baseline_samples,
  genes,
  ND_y_nudge = 0.5,
  comparisons = NULL,
  xlabels = NULL,
  linear = T,
  y_breaks = NULL,
  map_signif_level = F,
  legend = T,
  step_increase = 0,
  tip_length = 0,
  bar_fill,
  colors = c("#bfbfbfbf", "#666666")
)

`qpcr`	An instance of the qpcr class
`xvar`	Variable to be displayed on the x-axis. This needs to be a column n the annotation data.
`baseline_samples`	Samples that should be used as baseline for foldchange calculation.
`genes`	Vector of the genes that will be included in the plot.
`ND_y_nudge`	Nudge value for the display of labels for undetected values.
`comparisons`	List of comparisons that will be evaluated with the indicated statistical test. Each element of this list should contain a vector of length two, containing two values of the variable displayed on the x-axis.
`xlabels`	Named vector containing aliases for the values of the x-axis variable. These aliases will be used for plotting.
`linear`	Logical indicating whether the expression values should be in a linear range. If FALSE, log2 values will be plotted.
`y_breaks`	Numerical vector with custom y-axis breaks.
`map_signif_level`	Logical indicating whether to use asterisks to denote significance. If FALSE, p-values will be displayed.
`legend`	Logical indicating whether a legend needs to be displayed.
`step_increase`	Offset for each significance line.
`tip_length`	Tip length of each significance line.
`bar_fill`	Name of the variable, based on which the bars will be colored.
`colors`	Colors to fill the bars with.