Find specific markers for groups of cells

Source: R/find_marker_genes.R

Find specific markers for groups of cells

find_marker_genes(
  sce,
  by_vars = c("cluster_celltype", "clusters"),
  fraction_expressing = 0.1,
  top_n = 5,
  max_point_size = 3,
  n_cores = future::availableCores()
)

Arguments

sce

A SingleCellExperiment object

by_vars

The colData variable(s) to group cells by

fraction_expressing

Top marker genes should be expressed in a minimum of this fraction of cells (default 0.10)

top_n

The top_n genes to use for plotting / subset table generation

max_point_size

The point size used for plotting.

n_cores

The number of cores to use

Value

results_l A list of results

See also

Other Celltype annotation: map_celltypes_sce(), model_celltype_freqs()