Convert a Seurat v5 object as the input of 'SpaTopic'

Prepare 'SpaTopic' input from one Seurat v5 object

Usage

Seurat5obj_to_SpaTopic(object, group.by, image = "image1")

Arguments

object

Seurat v5 object

group.by

character. The name of the column that contains celltype information in the Seurat object.

image

character. The name of the image. Default is "image1".

Value

Return a data frame as the input of 'SpaTopic'

See also

lung5

Examples

## nano.obj is a Seurat v5 object
#dataset<-Seurat5obj_to_SpaTopic(object = nano.obj, 
#                 group.by = "predicted.annotation.l1",image = "image1")
## Expect output
data("lung5")