Plot standard curve of a certain analyte with fitted model — plot_standard_curve_analyte_with

Function plots the values of standard curve samples and the fitted model.

Usage

plot_standard_curve_analyte_with_model(
  plate,
  model,
  data_type = "Median",
  decreasing_rau_order = TRUE,
  log_scale = c("all"),
  plot_asymptote = TRUE,
  plot_test_predictions = TRUE,
  plot_blank_mean = TRUE,
  plot_rau_bounds = TRUE,
  plot_legend = TRUE,
  verbose = TRUE,
  ...
)

Arguments

plate: Plate object
model: fitted Model object, which predictions we want to plot
data_type: Data type of the value we want to plot - the same datatype as in the plate file. By default equals to Median
decreasing_rau_order: If TRUE the RAU values are plotted in decreasing order, TRUE by default.
log_scale: Which elements on the plot should be displayed in log scale. By default "all". If NULL or c() no log scale is used, if "all" or c("RAU", "MFI") all elements are displayed in log scale.
plot_asymptote: If TRUE the asymptotes are plotted, TRUE by default
plot_test_predictions: If TRUE the predictions for the test samples are plotted, TRUE by default. The predictions are obtained through extrapolation of the model
plot_blank_mean: If TRUE the mean of the blank samples is plotted, TRUE by default
plot_rau_bounds: If TRUE the RAU bounds are plotted, TRUE by default
plot_legend: If TRUE the legend is plotted, TRUE by default
verbose: If TRUE prints messages, TRUE by default
...: Additional arguments passed to the predict function

Value

a ggplot object with the plot

Examples

path <- system.file("extdata", "CovidOISExPONTENT.csv",
  package = "PvSTATEM", mustWork = TRUE
)
layout_path <- system.file("extdata", "CovidOISExPONTENT_layout.xlsx",
  package = "PvSTATEM", mustWork = TRUE
)
plate <- read_luminex_data(path, layout_filepath = layout_path, verbose = FALSE)
model <- create_standard_curve_model_analyte(plate, analyte_name = "Spike_B16172")
plot_standard_curve_analyte_with_model(plate, model, decreasing_rau_order = FALSE)
#> Scale for colour is already present.
#> Adding another scale for colour, which will replace the existing scale.