ModuleTFNetwork: ModuleTFNetwork

In smorabit/scWGCNA: hdWGCNA

ModuleTFNetwork

Description

Plotting the relationships between a TF and the co-expression modules

Usage

ModuleTFNetwork(
  seurat_obj,
  tf_name,
  tf_gene_name,
  edge.alpha = 0.75,
  cor_thresh = 0.25,
  high_color = "red",
  mid_color = "grey",
  low_color = "blue",
  slot = "data",
  size.scale = 30,
  tf_x = 0,
  tf_y = 0,
  wgcna_name = NULL
)

Arguments

seurat_obj	A Seurat object
tf_name	the Motif name for the tf
tf_gene_name	the gene associated with this tf in the rownames(seurat_obj)
edge.alpha	scaling factor for edge opacity in the network
cor_thresh	threshold to plot correlation edges between modules
high_color	color for positive correlation
mid_color	color for zero correlation
low_color	color for negative correlation
slot	the slot in the seurat object to extract expression data for the tf_gene_name
size.scale	scaling factor for the size of each node
tf_x	x coordinate for the TF if the TF is not found in the UMAP
tf_y	y coordinate for the TF if the TF is not foudn in the UMAP
wgcna_name	the name of the WGCNA experiment in the seurat object

Examples

ModuleTFNetwork

smorabit/scWGCNA documentation built on April 4, 2024, 10:32 a.m.