Visualize Dimensional Reduction genes — VizDimLoadings • Seurat

Visualize top genes associated with reduction components

VizDimLoadings(
  object,
  dims = 1:5,
  nfeatures = 30,
  col = "blue",
  reduction = "pca",
  projected = FALSE,
  balanced = FALSE,
  ncol = NULL,
  combine = TRUE
)

Arguments

object: Seurat object
dims: Number of dimensions to display
nfeatures: Number of genes to display
col: Color of points to use
reduction: Reduction technique to visualize results for
projected: Use reduction values for full dataset (i.e. projected dimensional reduction values)
balanced: Return an equal number of genes with + and - scores. If FALSE (default), returns the top genes ranked by the scores absolute values
ncol: Number of columns to display
combine: Combine plots into a single patchwork ggplot object. If FALSE, return a list of ggplot objects

Value

A patchwork ggplot object if combine = TRUE; otherwise, a list of ggplot objects

Examples

data("pbmc_small")
VizDimLoadings(object = pbmc_small)
#> Warning: Requested number is larger than the number of available items (20). Setting to 20.
#> Warning: Requested number is larger than the number of available items (20). Setting to 20.
#> Warning: Requested number is larger than the number of available items (20). Setting to 20.
#> Warning: Requested number is larger than the number of available items (20). Setting to 20.
#> Warning: Requested number is larger than the number of available items (20). Setting to 20.