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HDF5Array

HDF5 backend for DelayedArray objects

Implements the HDF5Array and TENxMatrix classes, 2 convenient and memory-efficient array-like containers for on-disk representation of HDF5 datasets. HDF5Array is for datasets that use the conventional (i.e. dense) HDF5 representation. TENxMatrix is for datasets that use the HDF5-based sparse matrix representation from 10x Genomics (e.g. the 1.3 Million Brain Cell Dataset). Both containers being DelayedArray extensions, they support all operations supported by DelayedArray objects. These operations can be either delayed or block-processed.

Functions (13)

HDF5Array-class

HDF5 datasets as DelayedArray objects

HDF5ArraySeed-class

HDF5ArraySeed objects

ReshapedHDF5Array-class

Virtually reshaped HDF5 datasets as DelayedArray objects

ReshapedHDF5ArraySeed-class

ReshapedHDF5ArraySeed objects

TENxMatrix-class

10x Genomics datasets as DelayedMatrix objects

TENxMatrixSeed-class

TENxMatrixSeed objects

dump-management

HDF5 dump management

h5mread

An alternative to rhdf5::h5read

h5mread_from_reshaped

Read data from a virtually reshaped HDF5 dataset

h5writeDimnames

Write/read the dimnames of an HDF5 dataset

saveHDF5SummarizedExperiment

Save/load an HDF5-based SummarizedExperiment object

writeHDF5Array

Write an array-like object to an HDF5 file

writeTENxMatrix

Write a matrix-like object as an HDF5-based sparse matrix

HDF5Array

HDF5 backend for DelayedArray objects

v1.18.1
Artistic-2.0
Authors
Hervé Pagès
Initial release

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