plot_replicate_histogram: Plot replicates histogram

In HaDeX2: Analysis and Visualisation of Hydrogen/Deuterium Exchange Mass Spectrometry Data

Plot replicates histogram

Description

Plot histogram on number of replicates per peptide in one or multiple time point of measurement.

Usage

plot_replicate_histogram(
  rep_dat,
  time_points = FALSE,
  interactive = getOption("hadex_use_interactive_plots")
)

Arguments

rep_dat	replicate data, created by create_replicate_dataset function.
time_points	logical, indicator if the histogram should show values aggregated for time points of measurements.
interactive	logical, whether plot should have an interactive layer created with with ggiraph, which would add tooltips to the plot in an interactive display (HTML/Markdown documents or shiny app).

Details

The function shows three versions of replicate histogram, based on supplied rep_dat and time_points. If time_points is selected, the histogram shows the number of replicates for time points of measurement, to spot if there were troubles with samples for specific time point of measurement. Then, on the X-axis is Exposure (in minutes) and on the Y-axis number of replicates. If time_points is not selected, on the X-axis there are peptide ID, and on the Y-axis there are numbers of replicates. If rep_dat contains data from one time point of measurement, the histogram colors reflect the number of replicates to highlight the outliers. If rep_dat contains multiple time point of measurement, the colors help to distinguish between them.

Value

a [ggplot2::ggplot()] object.

See Also

create_replicate_dataset show_replicate_histogram_data

Examples

rep_dat <- create_replicate_dataset(alpha_dat)
plot_replicate_histogram(rep_dat)

plot_replicate_histogram(rep_dat, time_points = TRUE)

rep_dat <- create_replicate_dataset(alpha_dat, time_t = 0.167)
plot_replicate_histogram(rep_dat)

HaDeX2 documentation built on Feb. 9, 2026, 5:07 p.m.