Plot an object of class explorer

Creates various plots for an object of class explorer. Depending on the specified type, the function can generate plots that show correlations between variables over x, correlations between x values for each variable, or the evolution of variables over x.

Usage

# S3 method for class 'explorer'
plot(
  x,
  type = "var_by_x",
  label_size = 4,
  signif = FALSE,
  method = "pearson",
  filter_var = NULL,
  id = NULL,
  n_row = NULL,
  n_col = NULL,
  base_size = 13,
  return_gg = FALSE,
  add_avg = FALSE,
  ...
)

Arguments

x

An object inheriting from class explorer, resulting from executing the function explorer().

type

Character string or number specifying the type of plot to generate. Available options are:

"var_by_x" or 1

Plots correlations between variables over x (default).

"x_by_var" or 2

Plots correlations between x points for each variable (y).

"evolution" or 3

Plot the evolution of the variables (y) over x.

"xy" or 4

Scatterplot (x, y)

label_size

Numeric. Size of the labels in the plot. Default is 4. Only works with type 1 and 2.

signif

Logical. If TRUE, adds p-values to the correlation plot labels. Default is FALSE. Only works with type 1 and 2.

method

Character string specifying the method for correlation calculation. Available options are "pearson" (default), "spearman", and "kendall". Only works with type 1 and 2.

filter_var

Character vector specifying the variables to exclude from the plot.

id

Optional unique identifier to filter the evolution type of plot. Default is NULL. Only works with type 3.

n_row

Integer specifying the number of rows to use in facet_wrap(). Default is NULL. Only works with type 1 and 2.

n_col

Integer specifying the number of columns to use in facet_wrap(). Default is NULL. Only works with type 1 and 2.

base_size

Numeric. Base font size for the plot. Default is 13.

return_gg

Logical. If TRUE, returns the ggplot object instead of printing it. Default is FALSE.

add_avg

Logical. If TRUE, returns evolution plot with the average trend across groups. Default is FALSE.

...

Further graphical parameters for future improvements.

Value

A ggplot object and an invisible data.frame containing the correlation table when type is "var_by_x" or "x_by_var".

Examples

library(flexFitR)
data(dt_potato)
results <- explorer(dt_potato, x = DAP, y = c(Canopy, GLI), id = Plot)
table <- plot(results, label_size = 4, signif = TRUE, n_row = 2)

table
#> # A tibble: 6 × 7
#>       x col    row    corr   p.value     n signi
#>   <dbl> <fct>  <fct> <dbl>     <dbl> <dbl> <fct>
#> 1    36 Canopy GLI    0.88 1.40e- 63   196 ***  
#> 2    42 Canopy GLI    0.99 7.92e-179   196 ***  
#> 3    56 Canopy GLI    0.93 1.80e- 85   196 ***  
#> 4    76 Canopy GLI    0.54 3.66e- 16   196 ***  
#> 5    92 Canopy GLI    0.31 1.25e-  5   196 ***  
#> 6   100 Canopy GLI    0.13 6.09e-  2   196 ns   
plot(results, type = "x_by_var", label_size = 4, signif = TRUE)