Perform pairwise differential gene expression tests between main pairs of clusters in parallel

de_selected_pairs(
  norm.dat,
  cl,
  pairs,
  method = "limma",
  low.th = 1,
  min.cells = 4,
  cl.means = NULL,
  cl.present = NULL,
  use.voom = FALSE,
  counts = NULL,
  mc.cores = 1
)

Arguments

norm.dat: a normalized data matrix for data.
cl: a cluster factor object.
pairs: A 2-column matrix of cluster pairs.
method: Either "limma" or "chisq".
low.th: The minimum expression value used to filter for expressed genes.
cl.present: A matrix of proportions of cells in each cluster with gene detection. Can be generated with get_cl_props(). Default is NULL (will be generated).
use.voom: Logical, whether or not to use voom() for limma calculations. Default is FALSE.
counts: A matrix of raw count data for each cell. Required if use.voom is TRUE. Default is NULL.
mc.cores: A number indicating how many processor cores to use for parallelization.