spatial_dim_plot: Tailored spatial dim plot

In andreaskapou/SeuratPipe: Packaging common Seurat analysis tasks

Tailored spatial dim plot

Description

This function adapts the SpatialDimPlot Seurat function by providing additional plotting options.

Usage

spatial_dim_plot(
  seu,
  group.by = "active.ident",
  title = NULL,
  alpha = 0.6,
  pt.size.factor = 1.1,
  crop = FALSE,
  col_pal = NULL,
  legend.position = "top",
  combine = TRUE,
  ...
)

Arguments

seu	Seurat object (required).
group.by	Name of meta.data column to group the data by.
title	Plot title
alpha	Controls opacity of spots. Provide a single alpha value for each plot.
pt.size.factor	Scale the size of the spots.
crop	Crop the plot in to focus on points plotted. Set to FALSE to show entire background image.
col_pal	Discrete colour palette to use, default is Hue palette (hue_pal) from 'scales' package. Should be of equal length to number of groups in 'group.by'.
legend.position	Position of legend, default "right" (set to "none" for clean plot).
combine	Combine plots into a single patchworked ggplot object. If FALSE, return a list of ggplot objects
...	Additional parameters passed to Seurat's SpatialDimPlot.

Value

A ggplot2 object.

Author(s)

C.A.Kapourani [e-mail]

andreaskapou/SeuratPipe documentation built on Nov. 22, 2022, 4:16 p.m.