draw_sample_tree: Draw a dendogram of data samples

In espors/idepGolem: Integrated Differential Expression and Pathway Analysis

Draw a dendogram of data samples

Description

Create a clustered tree of the samples in the dataset based on hierarchical clustering

Usage

draw_sample_tree(
  tree_data,
  gene_centering,
  gene_normalize,
  sample_centering,
  sample_normalize,
  hclust_funs,
  hclust_function,
  dist_funs,
  dist_function
)

Arguments

tree_data	Data that has been through pre-processing
gene_centering	TRUE/FALSE subtract mean from gene rows
gene_normalize	TRUE/FALSE divide by SD in gene rows
sample_centering	TRUE/FALSE subtract mean from sample columns
sample_normalize	TRUE/FALSE divide by SD in sample columns
hclust_funs	Clustering functions defined in idep, hcluster_functions()
hclust_function	String of chosen clustering method
dist_funs	Distance functions defined in idep dist_functions()
dist_function	Selected distance function

Value

Dendogram plot of dataset samples

See Also

Other plots: PCA_plot(), chr_counts_ggplot(), chr_normalized_ggplot(), cor_plot(), eda_boxplot(), eda_density(), eda_scatter(), gene_counts_ggplot(), individual_plots(), k_means_elbow(), mean_sd_plot(), rRNA_counts_ggplot(), sd_density(), t_SNE_plot(), total_counts_ggplot()

Other clustering functions: cluster_heat_click_info(), heat_sub(), heatmap_main(), k_means_elbow(), process_heatmap_data(), sd_density(), sub_heat_ann()

espors/idepGolem documentation built on April 23, 2024, 1:11 p.m.