Plot peptide mass measurement

Plot the mass measurements from replicates for peptide in specific time point.

Usage

plot_peptide_mass_measurement(
  dat,
  protein = dat[["Protein"]][1],
  state = dat[["State"]][1],
  sequence = dat[["Sequence"]][1],
  show_charge_values = TRUE,
  time_t = unique(dat[["Exposure"]])[3],
  interactive = getOption("hadex_use_interactive_plots")
)

Arguments

dat

data produced by read_hdx function

protein

chosen protein

state

biological state for chosen protein

sequence

sequence of chosen peptide

show_charge_values

logical, indicator if the data is shown for replicates or for charge values within the replicates

time_t

chosen time point

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

This function shows the measurements of mass from different replicates for specific peptide in specific state in specific time point of measurement on the plot. Moreover, on the plot is shown the average mass from the replicates, used later in calculations. The ribbon next to the dotted average mass indicates the uncertainty.

See also

read_hdx calculate_exp_masses_per_replicate calculate_exp_masses calculate_state_uptake calculate_diff_uptake

Examples

plot_peptide_mass_measurement(alpha_dat, sequence = "FGSDDEEESEEAKRLRE")

plot_peptide_mass_measurement(alpha_dat, sequence = "FGSDDEEESEEAKRLRE", show_charge_values = FALSE)