plot.UMAP.tSNE.sidebyside: plot.UMAP.tSNE.sidebyside

In vertesy/Seurat.utils: Seurat.utils - utility functions for Seurat

plot.UMAP.tSNE.sidebyside

Description

Plot a UMAP and tSNE side by side.

Usage

## S3 method for class 'UMAP.tSNE.sidebyside'
plot(
  obj = combined.obj,
  grouping = "res.0.6",
  no_legend = FALSE,
  do_return = TRUE,
  do_label = TRUE,
  label_size = 10,
  vector_friendly = TRUE,
  cells_use = NULL,
  no_axes = TRUE,
  pt_size = 0.5,
  name.suffix = NULL,
  width = hA4,
  heigth = 1.75 * wA4,
  filetype = "pdf",
  ...
)

Arguments

obj	Seurat object. Default: combined.obj
grouping	Variable to group cells by. Default: 'res.0.6'
no_legend	Logical, whether to display legend. Default: FALSE.
do_return	Logical, whether to return plot object. Default: TRUE.
do_label	Logical, whether to display labels. Default: TRUE.
label_size	Size of labels. Default: 10
vector_friendly	Logical, whether to optimize for vector outputs. Default: TRUE.
cells_use	A vector of cell names to use for the plot. Default: NULL
no_axes	Logical, whether to hide axes. Default: TRUE.
pt_size	Size of points. Default: 0.5
name.suffix	Suffix to append to the plot's name. Default: NULL
width	Width of the plot. Default: hA4
heigth	Height of the plot. Default: 1.75 * wA4
filetype	Filetype to save plot as. Default: 'pdf'
...	Pass any other parameter to the internally called functions (most of them should work).

See Also

save_plot

vertesy/Seurat.utils documentation built on Dec. 4, 2024, 5:20 p.m.