FindDMEs: FindDMEs

In smorabit/hdWGCNA: hdWGCNA

FindDMEs

Description

Function to compare expression levels of co-expression modules between two sets of cell barcodes.

Usage

FindDMEs(
  seurat_obj,
  barcodes1,
  barcodes2,
  features = "MEs",
  harmonized = TRUE,
  wgcna_name = NULL,
  add_missing = FALSE,
  test.use = "wilcox",
  only.pos = FALSE,
  logfc.threshold = 0,
  min.pct = 0,
  verbose = FALSE,
  pseudocount.use = 0,
  ...
)

Arguments

seurat_obj	A Seurat object
barcodes1	character vector containing cell barcodes for the first group to test. Positive fold-change means up-regulated in this group.
barcodes2	character vector containing cell barcodes for the second group to test. Negative fold-change means up-regulated in this group.
features	indicate whether to use "MEs" or "ModuleScores" for the comparison
harmonized	logical determining whether or not to use harmonized MEs
wgcna_name	The name of the hdWGCNA experiment in the seurat_obj@misc slot
add_missing	logical determining whether or not to add missing modules back into the resulting dataframe with NA values.
...	Additional parameters for the FindMarkers function

Value

A dataframe contaning differential ME results

Examples

FindDMEs

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