Convert a Seurat V5 object to a Giotto object

Convert a Seurat V5 object to a Giotto object

Usage

seuratToGiottoV5(
  sobject,
  spatial_assay = "Spatial",
  dim_reduction = c("pca", "umap"),
  subcellular_assay = "SCT",
  sp_network = NULL,
  nn_network = NULL,
  verbose = TRUE
)

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

sp_network

sp_network

nn_network

nn_network

verbose

logical. Default to TRUE object. Default is "Vizgen".

Value

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