Plot distribution of group across clusters

Takes a single cell object, a grouping variable, a factor within the group to test, and an ident class (i.e. clusters). Plots percentage or raw number of cells within factor present per level of ident (i.e. per cluster)

Usage

plotCellsInClusters(
  sc.obj,
  group = "barcode",
  factor = NULL,
  clusters = "seurat_clusters",
  plot.pct = T,
  plot = T
)

Arguments

sc.obj

Single cell Seurat or SingleCellExperiment object containing clusters and group metadata.

group

a column of metadata (string). Default = `barcode`.

factor

a level of group to test for enrichment per cluster, e.g. a specific barcode (string).

clusters

a column of metadata defining the cluster identities of each cell (string). Default = `seurat_clusters`

plot.pct

Plot percentages (`TRUE`) or raw numbers (`FALSE`) (boolean). Default = `TRUE`

plot

Create plot (`TRUE`) or return data (`FALSE`) (boolean). Default = `TRUE`.

Value

Returns a histogram or underlying plot data

Details

Plot number or percentage of a group per level of ident in a single cell object