Identify expressed genes — getExpressedGenes • scMiko

Identify expressed genes in Seurat object.

getExpressedGenes(
  object,
  min.pct = 0.1,
  min.cell = NULL,
  group = NA,
  group.boolean = "OR"
)

Arguments

object: Seurat Object
min.pct: minimum expressing fraction. Default: 0.1. Ignored if min.cell is specified.
min.cell: minimum number of expressing cells. If specified, min.pct is ignored.
group: Character specifying metadata field to group cells by. If not specified, global expression fraction is evaluated. If specified, group-level gene lists are combined used group.boolean.
group.boolean: Boolean used to combine group genelists. One of "OR" or "AND". Default: "OR". Argument is ignored if 'group' is not specified.

Value

vector of gene names

Author

Nicholas Mikolajewicz

Examples


split.var <- "seurat_clusters"
which.genes <- getExpressedGenes(object = so.query, min.pct = 0.1, group = split.var, group.boolean = "OR")
#> Error in DefaultAssay(so): object 'so.query' not found