Plot Median Genes per Cell per Sample — Plot_Median

Plot of median genes per cell per sample grouped by desired meta data variable.

Plot_Median_Genes(
  seurat_object,
  sample_col = "orig.ident",
  group_by = NULL,
  colors_use = NULL,
  dot_size = 1,
  plot_title = "Median Genes/Cell per Sample",
  y_axis_label = "Median Genes",
  x_axis_label = NULL,
  legend_title = NULL,
  x_lab_rotate = TRUE,
  color_seed = 123
)

Arguments

seurat_object: Seurat object name.
sample_col: Specify which column in meta.data specifies sample ID (i.e. orig.ident).
group_by: Column in meta.data slot to group results by (i.e. "Treatment").
colors_use: List of colors or color palette to use. Only applicable if group_by is not NULL.
dot_size: size of the dots plotted if group_by is not NULL. Default is 1.
plot_title: Plot title.
y_axis_label: Label for y axis.
x_axis_label: Label for x axis.
legend_title: Label for plot legend.
x_lab_rotate: logical. Whether to rotate the axes labels on the x-axis. Default is FALSE.
color_seed: random seed for the "varibow" palette shuffle if colors_use = NULL and number of groups plotted is greater than 36. Default = 123.

Value

A ggplot object

Examples

library(Seurat)
# Create example groups
pbmc_small$sample_id <- sample(c("sample1", "sample2"), size = ncol(pbmc_small), replace = TRUE)

# Plot
Plot_Median_Genes(seurat_object = pbmc_small, sample_col = "orig.ident",  group_by = "sample_id")
#> Bin width defaults to 1/30 of the range of the data. Pick better value with
#> `binwidth`.