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Convert H5MU files to h5Seurat files

Source: R/Convert.R, R/StreamHDF5.R
H5MUToH5Seurat.Rd

Converts a MuData h5mu file to h5seurat format. By default uses streaming conversion that copies fields directly between HDF5 files without loading into R memory. Each h5mu modality becomes a Seurat assay.

Usage

H5MUToH5Seurat(
  source,
  dest,
  overwrite = FALSE,
  gzip = 4L,
  verbose = TRUE,
  stream = TRUE
)

H5MUToH5Seurat(
  source,
  dest,
  overwrite = FALSE,
  gzip = 4L,
  verbose = TRUE,
  stream = TRUE
)

Arguments

source

Path to input .h5mu file

dest

Path for output .h5seurat file

overwrite

If TRUE, overwrite existing output

gzip

Gzip compression level (0-9)

verbose

Show progress messages

stream

If TRUE (default), stream fields directly. If FALSE, load as Seurat then save as h5seurat.

Value

Returns a handle to dest as an h5Seurat object

Invisibly returns dest