plot_feature_stability_mb_facet {ClustAssess}

Feature Stability - Cluster Membership Facet Plot

Description

Display a facet of plots where each subpanel is associated with a feature set and illustrates the distribution of the most frequent partition over the UMAP embedding.

Usage

plot_feature_stability_mb_facet(
  feature_object_list,
  text_size = 5,
  n_facet_cols = 3,
  point_size = 0.3
)

Arguments

feature_object_list

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

text_size

The size of the cluster label

n_facet_cols

The number of facet's columns.

point_size

The size of the points displayed on the plot.

Value

A ggplot2 object.

Examples

set.seed(2021)
# create an artificial expression matrix
expr_matrix = matrix(c(runif(100*10), runif(50*10, min = 5, max = 7)), nrow = 150, byrow = TRUE)
rownames(expr_matrix) = as.character(1:150)
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 = c(5,10),
   npcs = 2,
   n_repetitions = 3,
   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_mb_facet(feature_stability_result)