R: Feature Stability Incremental Boxplot

plot_feature_stability_ecs_incremental {ClustAssess} | R Documentation

## Feature Stability Incremental Boxplot

### Description

Perform an incremental ECS between two consecutive feature steps.

### Usage

    plot_feature_stability_ecs_incremental(
      feature_object_list,
      dodge_width = 0.7,
      text_size = 4
    )

### Arguments

`feature_object_list` | An object or a concatenation of objects returned by the 'get_feature_stability' method.
`dodge_width` | Used for adjusting the horizontal position of the boxplot; the value will be passed in the 'width' argument of the 'ggplot2::position_dodge' method.
`text_size` | The size of the labels above boxplots.

### Value

A ggplot2 object with ECS distribution will be displayed as a boxplot. Above each boxplot there will be a pair of numbers representing the two steps that are compared.

### Examples

    set.seed(2021)
    # create an artificial expression matrix
    expr_matrix = matrix(c(runif(25*10), runif(75*10, min = 5, max = 7)), nrow = 100, byrow = TRUE)
    rownames(expr_matrix) = as.character(1:100)
    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_ecs_incremental(feature_stability_result)

[Package ClustAssess version 0.3.0 Index]