differential_expression: Compute the differential expression across each pair of cell...

In linnykos/multiomicCCA: Tilted CCA

Compute the differential expression across each pair of cell types

Description

Compute the differential expression across each pair of cell types

Usage

differential_expression(
  seurat_obj,
  assay,
  idents,
  slot = "data",
  test_use = "wilcox",
  verbose = T
)

Arguments

seurat_obj	seurat object
assay	name of assay in the seurat_obj
idents	variables name inside seuart_obj that contains the cell-type information (or clustering information) for each cell
slot	slot of seurat_obj[[assay]] that informs with data matrix will be used in the DE test
test_use	either "MAST" or "wilcox" dictates which DE test will be used
verbose	non-negative integer

Value

a list with elements "combn_mat", "de_list" and "level_vec"

linnykos/multiomicCCA documentation built on July 17, 2025, 3:16 a.m.