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State deuterium uptake comparison

plot_state_comparison.Rd

Comparison plot of deuterium uptake values in time point for biological states.

Usage

plot_state_comparison(
  uptake_dat,
  skip_amino = 0,
  theoretical = FALSE,
  fractional = FALSE,
  line_size = 1.5,
  all_times = FALSE,
  time_t = NULL,
  interactive = getOption("hadex_use_interactive_plots")
)

Arguments

uptake_dat

data produced by calculate_state_uptake function

skip_amino

integer, indicator how many aminos from the N-terminus should be omitted

theoretical

logical, indicator if values are calculated using theoretical controls

fractional

logical, indicator if values are shown in fractional form

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

The function plot_state_comparison generates a comparison plot, presenting deuterium uptake values of peptides from selected protein in selected biological states at one time point of measurement at once. On X-axis there is a position in a sequence, with length of a segment of each peptide representing its length. On Y-axis there is deuterium uptake in selected form. Error bars represents the combined and propagated uncertainty.

See also

read_hdx calculate_state_uptake

Examples

comparison_dat <- calculate_state_uptake(alpha_dat)
plot_state_comparison(comparison_dat)


plot_state_comparison(uptake_dat, all_times = TRUE)
#> Error: object 'uptake_dat' not found
plot_state_comparison(uptake_dat, fractional = TRUE, all_times = TRUE)
#> Error: object 'uptake_dat' not found