plot_chiclet: Chiclet deuterium uptake plot

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

Chiclet deuterium uptake plot

Description

Chiclet plot of deuterium uptake values in time for one biological state.

Usage

plot_chiclet(
  uptake_dat,
  theoretical = FALSE,
  fractional = FALSE,
  show_uncertainty = FALSE,
  interactive = getOption("hadex_use_interactive_plots")
)

Arguments

uptake_dat	produced by create_state_uptake_dataset function.
theoretical	logical, determines if values are theoretical.
fractional	logical, determines if values are fractional.
show_uncertainty	logical, determines if the uncertainty is shown.
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

Function plot_chiclet produces a chiclet plot based on the same dataset as butterfly plot, as it is the different form of presenting the same data. On X-axis there is a peptide ID. On Y-axis are time points of measurement. Each tile for a peptide in time has a color value representing the deuterium uptake, in a form based on provided criteria (e.q. fractional). Each tile has a plus sign, which size represent the uncertainty of measurement for chosen value.

Value

a ggplot object.

See Also

create_state_uptake_dataset

Examples

state_uptake_dat <- create_state_uptake_dataset(alpha_dat)
plot_chiclet(state_uptake_dat)

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