Plot action potential frequency curves for multiple treatments

This function allows you to generate a plot of action potential frequency (y-axis) for each current injection (x-axis), coloured by treatment. The linetype indicates which state the data belong to (a recording taken during the baseline or after a hormone or treatment).

Usage

plot_AP_frequencies_multiple_treatments(
  data,
  include_all_treatments = "yes",
  list_of_treatments = NULL,
  plot_category = 2,
  included_sexes = "both",
  male_label = "Male",
  female_label = "Female",
  treatment_colour_theme,
  filename_suffix = "",
  save_plot_png = "no",
  ggplot_theme = patchclampplotteR_theme()
)

Arguments

data

Action potential frequency data imported through add_new_cells() with data_type == "AP_count"

include_all_treatments

A character ("yes" or "no") specifying if the plot will include data from all treatments. If "no", you must specify a list of treatments in list_of_treatments.

list_of_treatments

A list of character values describing the treatments that will be in the plot. Defaults to NULL, since include_all_treatments is "yes" by default.

plot_category

A numeric value specifying the category, which can be used to differentiate different protocol types. In the sample dataset for this package, plot_category == 2 represents experiments where insulin was applied continuously after a 5-minute baseline period.

included_sexes

A character value ("both", "male" or "female"). Useful if you want to have a plot with data from one sex only. Defaults to "both". If you choose a single sex, the resulting plot will have "-males-only" or "-females-only" in the file name. WARNING!! If you choose "male" or "female", you MUST ensure that the t_test_df contains data that has been filtered to only include one sex. Otherwise, the significance stars will represent both sexes and it will be inaccurate.

male_label

A character value used to describe how males are encoded in the sex column of the dataframe used in data. This MUST match the value for male data in the sex column, and it must be consistent across data sheets. Defaults to "Male".

female_label

A character value used to describe how females are encoded in the sex column of the dataframe used in data. This MUST match the value for female data in the sex column, and it must be consistent across data sheets. This must be consistent in all data sheets. Defaults to "Female".

treatment_colour_theme

A dataframe containing treatment names and their associated colours as hex values. See sample_treatment_names_and_colours for an example of what this dataframe should look like.

filename_suffix

Optional character value to add a suffix to the filename of the .png file created with this plot. Could be useful if you have specified a custom list of treatments.

save_plot_png

A character ("yes" or "no"). If "yes", the plot will be saved as a .png using ggsave(). The filepath depends on the current type, but they will all go in subfolders below Figures/ in your project directory.

ggplot_theme

The name of a ggplot theme or your custom theme. This will be added as a layer to a ggplot object. The default is patchclampplotteR_theme(), but other valid entries include theme_bw(), theme_classic() or the name of a custom ggplot theme stored as an object.

Value

A ggplot object. If save_plot_png == "yes", it will also generate a .png file in the folder Figures/Action-potentials relative to the project directory.

Examples

plot_AP_frequencies_multiple_treatments(
  data = sample_AP_count_data,
  include_all_treatments = "yes",
  plot_category = 2,
  included_sexes = "both",
  treatment_colour_theme = sample_treatment_names_and_colours
)
#> `geom_smooth()` using method = 'loess' and formula = 'y ~ x'