Load a saved Seurat object from an h5Seurat file

Load a saved Seurat object from an h5Seurat file

LoadH5Seurat(file, ...)

# S3 method for character
LoadH5Seurat(
  file,
  assays = NULL,
  reductions = NULL,
  graphs = NULL,
  images = NULL,
  meta.data = TRUE,
  commands = TRUE,
  misc = is.null(x = assays),
  tools = is.null(x = assays),
  verbose = TRUE,
  ...
)

# S3 method for H5File
LoadH5Seurat(
  file,
  assays = NULL,
  reductions = NULL,
  graphs = NULL,
  images = NULL,
  meta.data = TRUE,
  commands = TRUE,
  misc = is.null(x = assays),
  tools = is.null(x = assays),
  verbose = TRUE,
  ...
)

# S3 method for h5Seurat
LoadH5Seurat(
  file,
  assays = NULL,
  reductions = NULL,
  graphs = NULL,
  images = NULL,
  meta.data = TRUE,
  commands = TRUE,
  misc = is.null(x = assays),
  tools = is.null(x = assays),
  verbose = TRUE,
  ...
)

# S3 method for h5Seurat
as.Seurat(
  x,
  assays = NULL,
  reductions = NULL,
  graphs = NULL,
  images = NULL,
  meta.data = TRUE,
  commands = TRUE,
  misc = TRUE,
  tools = TRUE,
  verbose = TRUE,
  ...
)

Arguments

file, x	Name of h5Seurat or connected h5Seurat file to load
...	Arguments passed to other methods
assays	One of: A character vector with names of assays A character vector with one or more of counts, data, scale.data describing which slots of all assays to load A named list where each entry is either the name of an assay or a vector describing which slots (described above) to take from which assay NULL for all assays
reductions	One of: A character vector with names of reductions NULL for all reductions NA for global reductions FALSE for no reductions Note: Only reductions associated with an assay loaded in assays or marked as global will be loaded
graphs	One of: A character vector with names of graphs NULL for all graphs FALSE for no graphs Note: Only graphs associated with an assay loaded in assays will be loaded
images	One of: A character vector with names of images NULL for all images NA for global images FALSE for no images
meta.data	Load object metadata
commands	Load command information Note: only commands associated with an assay loaded in assays will be loaded
misc	Load miscellaneous data
tools	Load tool-specific information
verbose	Show progress updates

Value

A Seurat object with the data requested