plot_top_modules: plots the top x gini index modules (see Boniolo and Hoffmann...

In mlist/SPONGE: Sparse Partial Correlations On Gene Expression

plots the top x gini index modules (see Boniolo and Hoffmann 2022 et al. Figure 5)

Description

plots the top x gini index modules (see Boniolo and Hoffmann 2022 et al. Figure 5)

Usage

plot_top_modules(
  trained_model,
  k_modules = 25,
  k_modules_red = 10,
  text_size = 16
)

Arguments

trained_model	returned from train_and_test_model
k_modules	top k modules to be shown (default: 25)
k_modules_red	top k modules shown in red - NOTE: must be smaller than k_modules (default: 10)
text_size	text size (default 16)
bioMart_gene_symbol_columns	bioMart dataset column for gene symbols (e.g. human: hgnc_symbol, mouse: mgi_symbol) (default: hgnc_symbol)
bioMart_gene_ensembl	bioMart gene ensemble name (e.g., hsapiens_gene_ensembl).

Value

plot object for lollipop plot

mlist/SPONGE documentation built on Feb. 12, 2023, 1:22 a.m.