Convert an anndata object to a seurat object using reticulate

Convert an anndata object to a seurat object using reticulate

Usage

adata_to_srt(adata)

Arguments

adata

a connected python anndata object.

Examples

if (FALSE) { # \dontrun{
data("pancreas_sub")
adata <- srt_to_adata(pancreas_sub)
adata <- RunPAGA(
  adata = adata,
  group_by = "SubCellType",
  linear_reduction = "PCA",
  nonlinear_reduction = "UMAP"
)
srt <- adata_to_srt(adata)
srt

### Or convert a h5ad file to Seurat object
# library(reticulate)
# check_python("scanpy")
# sc <- import("scanpy")
# adata <- sc$read_h5ad("pancreas.h5ad")
# srt <- adata_to_srt(adata)
# srt
} # }