Convert Seurat to a Giotto object — srt_to_giotto • scop

Convert one Seurat spatial image into a Giotto object without running a Giotto workflow or changing the input object. Requires GiottoClass.

Usage

srt_to_giotto(object, image = NULL, srt = NULL, ...)

Arguments

object: A `Seurat` object.
image: Seurat image name. Multi-image objects require an explicit name.
srt: Deprecated alias for `object`; supply exactly one of the two. It will be removed in scop 1.0.0.
...: Arguments passed to other functions.

Value

A Giotto object.

Examples

if (FALSE) { # \dontrun{
data(visium_human_pancreas_sub)
spatial <- Seurat::NormalizeData(
  visium_human_pancreas_sub,
  assay = "Spatial",
  verbose = FALSE
)
srt_to_giotto(spatial, image = "slice1")
} # }