seuratToGiotto: Convert a Seurat object to a Giotto object

In drieslab/Giotto_site_suite: Spatial Single-Cell Transcriptomics Toolbox

Convert a Seurat object to a Giotto object

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.

drieslab/Giotto_site_suite documentation built on April 26, 2023, 11:51 p.m.