Create HDF5 data file from Seurat object

Create HDF5 data file from Seurat object

Usage

CreateDataFile(
  srt,
  data_file,
  name = NULL,
  assays = "RNA",
  layers = "data",
  compression_level = 6,
  overwrite = TRUE,
  verbose = TRUE
)

Arguments

srt

A Seurat object.

data_file

Path to the output data file. If not provided, the file will be named "data.hdf5" in the current directory.

name

Name of the dataset. If not provided, the name will default to the Seurat object's project name.

assays

The assays to include in the data file.

layers

The layers to include in the data file.

compression_level

Compression level for the HDF5 dataset.

overwrite

Whether to overwrite existing data in the data file.

verbose

Whether to print the message. Default is TRUE.

See also

CreateMetaFile, PrepareSCExplorer, FetchH5, RunSCExplorer