plot_standard_curve_analyte_with_model: Plot standard curve of a certain analyte with fitted model

In SerolyzeR: Reading, Quality Control and Preprocessing of MBA (Multiplex Bead Assay) Data

Plot standard curve of a certain analyte with fitted model

Description

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 = "SerolyzeR", mustWork = TRUE
)
layout_path <- system.file("extdata", "CovidOISExPONTENT_layout.xlsx",
  package = "SerolyzeR", 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)

SerolyzeR documentation built on April 12, 2025, 2:11 a.m.