Package index • modulr

WGCNA Module Creation & Execution

Core pipeline functions for building WGCNA co-expression trait modules and eigentraits

wgcnaModules() listof_wgcnaModules() plot_wgcnaModules() plot(<wgcnaModules>): Create WGCNA Modules
wgcna_harmonize(): Harmonize WGCNA module
load_wgcna(): Load WGCNA object
module_factors(): Extract module information from kME and colors

Data Pivoting & Sample Identification

Pivoting long harmonized data frames into wide matrices and standardizing sample identifiers

wgcna_pivot(): Pivot WGCNA object
wgcna_ID(): ID data frame from

Topology & Dissimilarity Calculations

Soft-thresholding power estimation and TOM dissimilarity matrix computation

wgcna_topology() ggplot_wgcna_topology(): WGCNA topology
wgcna_dist(): Topological Overlap Matrix (TOM) Dissimilarity
wgcna_params(): Parameters of WGCNA object

Visualization & Fallbacks

Plotting dendrograms and fallback ggplot displays

wgcnaModules() listof_wgcnaModules() plot_wgcnaModules() plot(<wgcnaModules>): Create WGCNA Modules
plot_null(): Plot Null Message Graphic