plot_overlap_heatmaps: Generate Heatmaps to Visualize Overlap and Similarity...

In GeneSelectR: 'GeneSelectR' - Comprehensive Feature Selection Workflow for Bulk RNAseq Datasets

Generate Heatmaps to Visualize Overlap and Similarity Coefficients between Feature Lists

Description

This function takes a list of matrices of overlap and similarity coefficients and generates heatmaps to visualize them.

Usage

plot_overlap_heatmaps(coefficients, save_plot = FALSE, filename = NULL)

Arguments

coefficients	A list of matrices showing the Overlap, Jaccard, and Soerensen-Dice coefficients for the feature lists.
save_plot	A logical value indicating whether to save the heatmap plots to a file or not. Default is FALSE.
filename	A character string specifying the filename for the saved heatmap plots (if save_plot = TRUE).

Value

A grid of ggplot2 heatmap objects visualizing the Overlap, Jaccard, and Soerensen-Dice coefficients. The grid layout includes heatmaps for both 'inbuilt' and 'permutation' feature importance coefficients (if available). If save_plot is TRUE, the heatmaps are also saved to the specified file.

Examples

# Assuming `coefficients` is a list containing matrices for Overlap, Jaccard,
# and Soerensen-Dice coefficients
# For demonstration, let's create a mock coefficients list
mock_matrix <- matrix(runif(25), nrow = 5)
coefficients <- list(inbuilt_feature_importance_coefficient = list(overlap = mock_matrix,
                     jaccard = mock_matrix, soerensen = mock_matrix),
                     permutation_importance_coefficients = list(overlap = mock_matrix,
                     jaccard = mock_matrix, soerensen = mock_matrix))

# Plot the overlap heatmaps
heatmap_plots <- plot_overlap_heatmaps(coefficients)
print(heatmap_plots)

GeneSelectR documentation built on May 29, 2024, 4:01 a.m.