UpSet-style Plot

library(ggalign)
#> Loading required package: ggplot2
#> ========================================
#> ggalign version 1.2.0.9000
#> 
#> If you use it in published research, please cite: 
#> Peng, Y.; Jiang, S.; Song, Y.; et al. ggalign: Bridging the Grammar of Graphics and Biological Multilayered Complexity. Advanced Science. 2025. doi:10.1002/advs.202507799
#> ========================================

Create a toy list of sets, Each element in the list is a character vector (simulating a set of items)

set.seed(123)
lt <- list(
    a = sample(letters, 5),
    b = sample(letters, 10),
    c = sample(letters, 15)
)

# 'tune()' converts the list into an UpSet-compatible format
# For lists, the shape is automatically set to 'upset',
# so there’s no need to manually specify the second argument
ggupset(tune(lt)) +
    # fill is used for background rect
    scale_fill_manual(values = c("#F0F0F0", "white"), guide = "none") +
    # color is used for background rect
    scale_color_manual(values = c("grey", "black"), guide = "none") +

    # Add top annotation showing the size of each intersection
    anno_top(size = 0.5) +
    ggalign(data = function(d) ggalign_attr(d, "intersection_sizes")) +
    geom_bar(aes(y = .data$value), stat = "identity") +

    # Add right annotation showing the size of each original set
    anno_right(size = 0.5) +
    ggalign(data = function(d) ggalign_attr(d, "set_sizes")) +
    geom_bar(aes(x = .data$value), stat = "identity", orientation = "y")