find_marker_genes: Find specific markers for groups of cells

In combiz/scFlow: A Single-Cell/Nuclei Analysis Toolkit

Find specific markers for groups of cells

Description

Find specific markers for groups of cells

Usage

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()

combiz/scFlow documentation built on Feb. 25, 2024, 10:25 a.m.