Compute differential expression summary statistics for all pairs of clusters based on de_param() — de_stats_all_pairs • scrattch.hicat

Compute differential expression summary statistics for all pairs of clusters based on de_param()

de_stats_all_pairs(
  norm.dat,
  cl,
  de.param = de_param(),
  method = "limma",
  de.genes = NULL,
  ...
)

Arguments

norm.dat: a normalized data matrix for data.
cl: a cluster factor object.
de.param: A list of differential gene expression parameters from de_param()
method: If de.df is NULL, use "limma" or "chisq" to compute differentially expressed genes.
...: Additional parameters passed to de_selected_pairs()
de.df: Optional. Pre-computed results from de_all_pairs() or de_selected_pairs. Default = NULL.

Value

a character vector of all differentially expressed genes.