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Chiclet deuterium uptake plot

plot_chiclet.Rd

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).

Value

a ggplot object.

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.

See also

create_state_uptake_dataset

Examples

state_uptake_dat <- create_state_uptake_dataset(alpha_dat)
plot_chiclet(state_uptake_dat)
#> Warning: The `size` argument of `element_rect()` is deprecated as of ggplot2 3.4.0.
#> ℹ Please use the `linewidth` argument instead.
#> ℹ The deprecated feature was likely used in the HaDeX package.
#>   Please report the issue to the authors.