Color legends based on custom-fill colors using ggforce::geom_mark

I am trying to use custom colors for my plot and legends. However, when I run the code below, the legends disappear (see Fig. 1). The legends are present when I do not use custom colors to fill the ellipses (see Fig. 2). I will appreciate any suggestions.

Fig. 1:

Fig. 2:

library(palmerpenguins)
library(tidyverse)
library(ggplot2)
library(ggforce)

penguins <- penguins %>%
  drop_na()
penguins %>% head() %>% print()
cols <- c("#0066cc","#9933ff","#66cc33")
my_color <- rep("", nrow(penguins))
cidx <- 0
for (color in unique(penguins$species)){
  cidx <- cidx   1
  idx <- which(penguins$species == color)
  my_color[idx] <- cols[cidx]
}

p <- penguins %>%
  ggplot(aes(x = bill_length_mm,
             y = flipper_length_mm)) 
  geom_mark_ellipse(aes(fill = I(my_color), alpha = I(0.2)),
  # geom_mark_ellipse(aes(fill = species),
                   expand = unit(0.5,"mm"),
                   size = 0)  
  geom_point(color = I(my_color))

plot(p)

CodePudding user response：

You could achieve your requirements within the ggplot build-up using scales...

library(palmerpenguins)
library(ggplot2)
library(ggforce)
library(tidyr)

penguins <- 
  penguins  |> 
  drop_na()


cols <- c("#0066cc","#9933ff","#66cc33")

penguins |> 
  ggplot(aes(x = bill_length_mm,
             y = flipper_length_mm)) 
  geom_mark_ellipse(aes(fill = species),
                    colour = NA,
                    alpha = 0.2,
                    expand = unit(0.5,"mm"),
                    size = 0)  
  geom_point(aes(color = species)) 
  scale_fill_manual(breaks = unique(penguins$species),
                    values = cols) 
  scale_colour_manual(breaks = unique(penguins$species),
                    values = cols)

^{Created on 2022-10-21 with reprex v2.0.2}

CodePudding user response：

You could shorten the code substantially by using after_scale

library(palmerpenguins)
library(ggforce)
#> Loading required package: ggplot2

ggplot(tidyr::drop_na(penguins),
       aes(bill_length_mm, flipper_length_mm, color = species))  
  geom_point()  
  geom_mark_ellipse(aes(fill = after_scale(alpha(colour, 0.2))),
                    expand = unit(0.5, "mm"), size = 0)  
  scale_colour_manual(values = c("#0066cc","#66cc33","#9933ff"))

^{Created on 2022-10-21 with reprex v2.0.2}