HubGeneNetworkPlot: HubGeneNetworkPlot

In smorabit/hdWGCNA: hdWGCNA

HubGeneNetworkPlot

Description

Construct a unified network plot comprising hub genes for multiple modules.

Usage

HubGeneNetworkPlot(
  seurat_obj,
  mods = "all",
  n_hubs = 6,
  n_other = 3,
  sample_edges = TRUE,
  edge_prop = 0.5,
  return_graph = FALSE,
  edge.alpha = 0.25,
  vertex.label.cex = 0.5,
  hub.vertex.size = 4,
  other.vertex.size = 1,
  wgcna_name = NULL,
  ...
)

Arguments

seurat_obj	A Seurat object
mods	Names of the modules to plot. If mods = "all", all modules are plotted.
n_hubs	The number of hub genes to plot for each module.
n_other	The number of non-hub genes to sample from each module
edge_prop	The proportion of edges in the graph to sample.
return_graph	logical determining whether we return the graph (TRUE) or plot the graph (FALSE)
edge.alpha	Scaling factor for the edge opacity
vertex.label.cex	The font size of the gene labels
hub.vertex.size	The size of the hub gene nodes
other.vertex.size	The size of the other gene nodes
wgcna_name	The name of the hdWGCNA experiment in the seurat_obj@misc slot

Examples

HubGeneNetworkPlot

smorabit/hdWGCNA documentation built on Oct. 23, 2024, 11:19 p.m.