Export SeuratObject to Other Formats.

Usage

ExportSeurat(
  seu.obj,
  assay = NULL,
  reduction = NULL,
  to = c("SCE", "AnnData", "CellDataSet", "cell_data_set", "loom"),
  anndata.file = NULL,
  loom.file = NULL,
  conda.path = NULL,
  ...
)

Arguments

seu.obj: A seurat object.
assay: Which assay to use. Default: NULL (get with DefaultAssay).
reduction: Name of DimReduc to set to main reducedDim in cds.
to: The target format, chosen from "SCE" (SingleCellExperiment), "AnnData", "CellDataSet", "cell_data_set", "loom". Default: "SCE".
anndata.file: File used to save AnnData results. Default: NULL.
loom.file: File used to save loom results. Default: NULL.
conda.path: Conda environment path, used when to is "AnnData". Default: NULL.
...: Parameter for as.SingleCellExperiment, sceasy::convertFormat, as.CellDataSet, as.cell_data_set, SaveLoom, corresponding to to.

Value

Object corresponding to to.