create_network_plot: Create network visualization of GSEA results

In ggpicrust2: Make 'PICRUSt2' Output Analysis and Visualization Easier

Create network visualization of GSEA results

Description

Create network visualization of GSEA results

Usage

create_network_plot(
  gsea_results,
  similarity_measure = "jaccard",
  similarity_cutoff = 0.3,
  n_pathways = 20,
  layout = "fruchterman",
  node_color_by = "NES",
  edge_width_by = "similarity"
)

Arguments

gsea_results	A data frame containing GSEA results from the pathway_gsea function
similarity_measure	A character string specifying the similarity measure: "jaccard", "overlap", or "correlation"
similarity_cutoff	A numeric value specifying the similarity threshold for filtering connections
n_pathways	An integer specifying the number of pathways to display
layout	A character string specifying the network layout algorithm: "fruchterman", "kamada", or "circle"
node_color_by	A character string specifying the node color mapping: "NES", "pvalue", or "p.adjust"
edge_width_by	A character string specifying the edge width mapping: "similarity" or "constant"

Value

A ggplot2 object

ggpicrust2 documentation built on April 13, 2025, 9:08 a.m.