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.

Getting started

Package details

AuthorHervé Pagès
Bioconductor views Annotation Coverage DataImport DataRepresentation GenomeAnnotation ImmunoOncology Infrastructure RNASeq Sequencing SingleCell
MaintainerHervé Pagès <hpages.on.github@gmail.com>
URL https://bioconductor.org/packages/HDF5Array
Package repositoryView on Bioconductor
Installation Install the latest version of this package by entering the following in R:
if (!requireNamespace("BiocManager", quietly = TRUE))


Try the HDF5Array package in your browser

Any scripts or data that you put into this service are public.

HDF5Array documentation built on Feb. 6, 2021, 2 a.m.