dimPlot: Low-dimensional embeddings' plot

In PRECAST: Embedding and Clustering with Alignment for Spatial Datasets

Low-dimensional embeddings' plot

Description

Low-dimensional embeddings' plot colored by a specified meta data in the Seurat object.

Usage

  dimPlot(seuInt, item=NULL, reduction=NULL, point_size=1,text_size=16, 
                    cols=NULL,font_family='', border_col="gray10",
                    fill_col="white", ...)

Arguments

seuInt	an object named "Seurat".
item	the item used for coloring the plot in the meta data of seuInt object.
reduction	the reduction used for plot in the seuInt object. If reduction is null, the last added one is used for plotting.
point_size	the size of point in the scatter plot.
text_size	the text size in the plot.
cols	colors used in the plot
font_family	the font family used for the plot.
border_col	the border color in the plot.
fill_col	the color used in backgroup.
...	other arguments passed to plot_scatter

.

Details

Nothing

Value

Return a ggplot2 object.

Note

nothing

Author(s)

Wei Liu

See Also

None

Examples

  data(PRECASTObj)
  PRECASTObj <- SelectModel(PRECASTObj)
  seuInt <- IntegrateSpaData(PRECASTObj, species='unknown')
  dimPlot(seuInt, reduction = 'PRECAST')
  ## or use the Seurat::DimPlot(seuInt, reduction = 'PRECAST')
  

PRECAST documentation built on May 29, 2024, 3 a.m.