plot_feature_stability_boxplot {ClustAssess}

Feature Stability Boxplot

Description

Display EC consistency for each feature set and for each step. Above each boxplot there is a number representing the step (or the size of the subset)

Usage

plot_feature_stability_boxplot(feature_object_list, text_size = 4)

Arguments

feature_object_list

An object or a concatenation of objects returned by the 'get_feature_stability' method

text_size

The size of the labels above boxplots.

Value

A ggplot2 object.

Examples

set.seed(2021)
# create an artificial expression matrix
expr_matrix = matrix(c(runif(100*10), runif(100*10, min = 3, max = 4)), nrow = 200, byrow = TRUE)
rownames(expr_matrix) = as.character(1:200)
colnames(expr_matrix) = paste("feature", 1:10)

feature_stability_result = get_feature_stability(data_matrix = t(expr_matrix),
   feature_set = colnames(expr_matrix),
   feature_type = "feature_name",
   steps = 5,
   npcs = 2,
   n_repetitions = 10,
   algorithm = 1,
   # the following parameters are used by the umap function and are not mandatory
   n_neighbors = 3,
   approx_pow = TRUE,
   n_epochs = 0,
   init = "random",
   min_dist = 0.3)
plot_feature_stability_boxplot(feature_stability_result)