nice_spatial_dim_plot: nice_spatial_dim_plot

In mvhunter1/mvhspatialplots: Some improved functions for analysis of ST and GSEA data.

Description

nicer looking version of the Seurat function SpatialDimPlot.

Usage

nice_spatial_dim_plot(
  seurat_obj,
  group.by,
  im_alpha = 0,
  pt.size = 1.4,
  stroke = 0,
  cols = NULL,
  label = F,
  show_legend = T
)

Arguments

seurat_obj	Seurat object.
group.by	what to colour the points by, usually a column in the Seurat object metadata.
im_alpha	set to 1 to plot the tissue image, 0 otherwise.
pt.size	size of plotted points on spatial array.
stroke	linewidth to outline plotted points in black (default = no outline).
cols	optional: vector of colours for each plotted group.
label	if T, will label groups with text on plot.
show_legend	if T, will include the legend but won't label points w/text on plot.

Value

SpatialPlot.

mvhunter1/mvhspatialplots documentation built on April 24, 2021, 10:52 a.m.