DR.SC (version 3.7)

spatialPlotClusters: Spatial coordinates plot visualization

Description

Intuitive way of visualizing how cell types changes across the spatial locations.

Usage

spatialPlotClusters(seu)

Value

return a ggplot2 object.

Arguments

seu

an object of class "Seurat" obtained by DR.SC.

Author

Wei Liu

Details

Nothing

References

None

See Also

None

Examples

## we generate the spatial transcriptomics data with lattice neighborhood, i.e. ST platform.
    data(seu)
    library(Seurat)
    seu <- NormalizeData(seu)
    # choose spatially variable features using Seurat
    seu <- FindSVGs(seu)
    # use SVGs to fit DR.SC model
    # maxIter = 2 is only used for illustration, and user can use default.
    seu1 <- DR.SC(seu, K=4,platform = 'ST', maxIter=2,verbose=FALSE)
    spatialPlotClusters(seu1)