seu_umap: UMAP plot wrapper for Seurat
In AlexanderKirchmair/datamisc: Various functions for data handling

seu_umap

R Documentation

UMAP plot wrapper for Seurat

Description

UMAP plot wrapper for Seurat

Usage

seu_umap(
  seu,
  features = NULL,
  groups = NULL,
  label = FALSE,
  alpha = 1,
  assay = NULL,
  slot = NULL,
  colors = NULL,
  min_cutoff = "q05",
  max_cutoff = "q95",
  reduction = "umap",
  pt_shape = 16,
  pt_size = 0.5,
  title_size = 18,
  axis_size = 16,
  axis_text_size = 14,
  legend_key_size = 18,
  legend_text_size = 18,
  lwd = 0.5,
  ...
)

Arguments

...

Examples

seu <- get_seu_dataset() |> ScaleData() |> FindVariableFeatures() |> RunPCA() |> RunUMAP(dims = 1:10)
seu_umap(seu, features = "S100A9")
seu_umap(seu, groups = "seurat_annotations")

AlexanderKirchmair/datamisc documentation built on June 13, 2025, 5:26 a.m.