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Plot number of features with s-value below threshold vs FSR

Source: R/plot_methods.R
plot_fsrnbrcurve.Rd

Plot the number of features with an s-value below a threshold vs the observed false sign rate (FSR), for given adjusted p-value thresholds and/or as curves traced out by considering all threshold values.

Usage

plot_fsrnbrcurve(
  cobraplot,
  title = "",
  stripsize = 15,
  titlecol = "black",
  pointsize = 5,
  xaxisrange = c(0, 1),
  plottype = c("curve", "points"),
  linewidth = 1
)

Arguments

cobraplot

A COBRAPlot object.

title

A character string giving the title of the plot.

stripsize

A numeric value giving the size of the strip text, when the results are stratified by an annotation.

titlecol

A character string giving the color of the title.

pointsize

A numeric value giving the size of the plot characters.

xaxisrange

A numeric vector with two elements, giving the lower and upper boundary of the x-axis, respectively.

plottype

A character vector giving the type of plot to construct. Can be any combination of the two elements "curve" and "points".

linewidth

The line width used for plotting

Value

A ggplot object

Author

Charlotte Soneson

Examples

data(cobradata_example_sval)
cobraperf <- calculate_performance(cobradata_example_sval,
                                   cont_truth = "logFC",
                                   aspects = c("fsrnbr", "fsrnbrcurve"))
#> column Method3 is being ignored for FSR/NBR calculations
#> column Method3 is being ignored for FSRNBR calculations
cobraplot <- prepare_data_for_plot(cobraperf, colorscheme = "Dark2",
                                   incltruth = TRUE)
plot_fsrnbrcurve(cobraplot, plottype = c("curve", "points"))