Convert a Seurat object to a Giotto object#

Last Updated: Sep 07, 2023

Description#

Convert a Seurat object to a Giotto object

Usage#

seuratToGiotto(
  sobject,
  spatial_assay = "Spatial",
  dim_reduction = c("pca", "umap"),
  subcellular_assay = "Vizgen"
)

Arguments#

sobject

Input Seurat object to convert to Giotto object

spatial_assay

Specify name of the spatial assay slot in Seurat. Default is "Spatial".

dim_reduction

Specify which dimensional reduction computations to fetch from input Seurat object. Default is "c('pca', 'umap')".

subcellular_assay

Specify name of the subcellular assay in input object. Default is "Vizgen".

Value#

A Giotto object converted from Seurat object with all computations stored in it.