Data Format Conversion between SingleCellExperiment and loom. — SCELoom • GEfetch2R

Data Format Conversion between SingleCellExperiment and loom.

Usage

SCELoom(
  from = c("SingleCellExperiment", "loom"),
  to = c("loom", "SingleCellExperiment"),
  sce = NULL,
  loom.file = NULL,
  ...
)

Arguments

from: The source data format to convert, chosen from SingleCellExperiment and AnnData. Default: SingleCellExperiment.
to: The target data format to convert, chosen from AnnData and SingleCellExperiment. Default: loom.
sce: The SingleCellExperiment object to convert. Default: NULL.
loom.file: File used to save or contains loom results. Default: NULL.
...: Parameters for sceasy::convertFormat and sceasy::convertFormat.

Value

NULL or SingleCellExperiment.

Examples

if (FALSE) {
# convert from loom to SingleCellExperiment, need users to provide the loom file
sce.obj <- SCELoom(
  from = "loom", to = "SingleCellExperiment",
  loom.file = "path/to/loom"
)
# convert from SingleCellExperiment to loom, need users to provide the loom file
SCELoom(
  from = "SingleCellExperiment", to = "loom", sce = sce.obj,
  loom.file = "path/to/loom"
)
}