A class for connections to h5Seurat files

A class for connections to h5Seurat files

A class for connections to h5Seurat files

Format

An R6Class object

See also

H5File

Super classes

hdf5r::H5RefClass -> hdf5r::H5File -> srtdisk::scdisk -> h5Seurat

Methods

Public methods

• h5Seurat$index()

• h5Seurat$set.version()

• h5Seurat$version()

• h5Seurat$detect.version()

• h5Seurat$is.v5()

Inherited methods

• hdf5r::H5RefClass$close()
• hdf5r::H5RefClass$dec_ref()
• hdf5r::H5RefClass$get_file_id()
• hdf5r::H5RefClass$get_obj_type()
• hdf5r::H5RefClass$get_ref()
• hdf5r::H5RefClass$inc_ref()
• hdf5r::H5RefClass$methods()
• hdf5r::H5File$attr_delete()
• hdf5r::H5File$attr_delete_by_idx()
• hdf5r::H5File$attr_delete_by_name()
• hdf5r::H5File$attr_exists()
• hdf5r::H5File$attr_exists_by_name()
• hdf5r::H5File$attr_get_number()
• hdf5r::H5File$attr_info_by_idx()
• hdf5r::H5File$attr_info_by_name()
• hdf5r::H5File$attr_name_by_idx()
• hdf5r::H5File$attr_open()
• hdf5r::H5File$attr_open_by_idx()
• hdf5r::H5File$attr_open_by_name()
• hdf5r::H5File$attr_rename()
• hdf5r::H5File$attr_rename_by_name()
• hdf5r::H5File$close_all()
• hdf5r::H5File$commit()
• hdf5r::H5File$create_attr()
• hdf5r::H5File$create_attr_by_name()
• hdf5r::H5File$create_dataset()
• hdf5r::H5File$create_group()
• hdf5r::H5File$create_reference()
• hdf5r::H5File$exists()
• hdf5r::H5File$file_info()
• hdf5r::H5File$flush()
• hdf5r::H5File$get_filename()
• hdf5r::H5File$get_filesize()
• hdf5r::H5File$get_intent()
• hdf5r::H5File$get_obj_count()
• hdf5r::H5File$get_obj_ids()
• hdf5r::H5File$get_obj_name()
• hdf5r::H5File$group_info()
• hdf5r::H5File$group_info_by_idx()
• hdf5r::H5File$group_info_by_name()
• hdf5r::H5File$link()
• hdf5r::H5File$link_copy_from()
• hdf5r::H5File$link_copy_to()
• hdf5r::H5File$link_create_external()
• hdf5r::H5File$link_create_hard()
• hdf5r::H5File$link_create_soft()
• hdf5r::H5File$link_delete()
• hdf5r::H5File$link_delete_by_idx()
• hdf5r::H5File$link_exists()
• hdf5r::H5File$link_info()
• hdf5r::H5File$link_info_by_idx()
• hdf5r::H5File$link_move_from()
• hdf5r::H5File$link_move_to()
• hdf5r::H5File$link_name_by_idx()
• hdf5r::H5File$link_value()
• hdf5r::H5File$link_value_by_idx()
• hdf5r::H5File$ls()
• hdf5r::H5File$mount()
• hdf5r::H5File$obj_copy_from()
• hdf5r::H5File$obj_copy_to()
• hdf5r::H5File$obj_info()
• hdf5r::H5File$obj_info_by_idx()
• hdf5r::H5File$obj_info_by_name()
• hdf5r::H5File$open()
• hdf5r::H5File$open_by_idx()
• hdf5r::H5File$path_valid()
• hdf5r::H5File$print()
• hdf5r::H5File$unmount()
• srtdisk::scdisk$chunk.points()
• srtdisk::scdisk$finalizer()
• srtdisk::scdisk$initialize()
• srtdisk::scdisk$last.modified()
• srtdisk::scdisk$timestamp()

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Method index()

Get the index for this h5Seurat file

Usage

h5Seurat$index()

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Method set.version()

Set the version attribute

Usage

h5Seurat$set.version(version)

Arguments

version

A version number matching the regex ^\d+(\.\d+){2}(\.9\d{3})?$

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Method version()

Get the version attribute

Usage

h5Seurat$version()

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Method detect.version()

Detect the Seurat version of the stored object

Usage

h5Seurat$detect.version()

Returns

A string indicating the detected version ("V3", "V4", or "V5")

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Method is.v5()

Check if this is a V5 format file

Usage

h5Seurat$is.v5()

Returns

Logical indicating if file uses V5 format