:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'bioconductor-hdf5array' .. highlight: bash bioconductor-hdf5array ====================== .. conda:recipe:: bioconductor-hdf5array :replaces_section_title: :noindex: HDF5 backend for DelayedArray objects :homepage: https://bioconductor.org/packages/3.18/bioc/html/HDF5Array.html :license: Artistic-2.0 :recipe: /`bioconductor-hdf5array `_/`meta.yaml `_ :links: biotools: :biotools:`hdf5array`, doi: :doi:`10.1038/nmeth.3252` Implement the HDF5Array\, H5SparseMatrix\, H5ADMatrix\, and TENxMatrix classes\, 4 convenient and memory\-efficient array\-like containers for representing and manipulating either\: \(1\) a conventional \(a.k.a. dense\) HDF5 dataset\, \(2\) an HDF5 sparse matrix \(stored in CSR\/CSC\/Yale format\)\, \(3\) the central matrix of an h5ad file \(or any matrix in the \/layers group\)\, or \(4\) a 10x Genomics sparse matrix. All these containers are DelayedArray extensions and thus support all operations \(delayed or block\-processed\) supported by DelayedArray objects. .. conda:package:: bioconductor-hdf5array |downloads_bioconductor-hdf5array| |docker_bioconductor-hdf5array| :versions: .. raw:: html
1.30.0-01.28.1-01.26.0-21.26.0-11.22.1-11.22.1-01.22.0-11.20.0-11.20.0-0 ``1.30.0-0``,  ``1.28.1-0``,  ``1.26.0-2``,  ``1.26.0-1``,  ``1.22.1-1``,  ``1.22.1-0``,  ``1.22.0-1``,  ``1.20.0-1``,  ``1.20.0-0``,  ``1.18.1-0``,  ``1.18.0-0``,  ``1.16.0-0``,  ``1.14.0-0``,  ``1.12.1-0``,  ``1.10.1-0``,  ``1.8.1-0``,  ``1.6.0-0`` .. raw:: html
:depends bioconductor-biocgenerics: ``>=0.48.0,<0.49.0`` :depends bioconductor-biocgenerics: ``>=0.48.1,<0.49.0a0`` :depends bioconductor-delayedarray: ``>=0.28.0,<0.29.0`` :depends bioconductor-delayedarray: ``>=0.28.0,<0.29.0a0`` :depends bioconductor-iranges: ``>=2.36.0,<2.37.0`` :depends bioconductor-iranges: ``>=2.36.0,<2.37.0a0`` :depends bioconductor-rhdf5: ``>=2.46.0,<2.47.0`` :depends bioconductor-rhdf5: ``>=2.46.1,<2.47.0a0`` :depends bioconductor-rhdf5filters: ``>=1.14.0,<1.15.0`` :depends bioconductor-rhdf5filters: ``>=1.14.1,<1.15.0a0`` :depends bioconductor-rhdf5lib: ``>=1.24.0,<1.25.0`` :depends bioconductor-rhdf5lib: ``>=1.24.0,<1.25.0a0`` :depends bioconductor-s4arrays: ``>=1.2.0,<1.3.0`` :depends bioconductor-s4arrays: ``>=1.2.0,<1.3.0a0`` :depends bioconductor-s4vectors: ``>=0.40.0,<0.41.0`` :depends bioconductor-s4vectors: ``>=0.40.2,<0.41.0a0`` :depends libblas: ``>=3.9.0,<4.0a0`` :depends libgcc-ng: ``>=12`` :depends liblapack: ``>=3.9.0,<4.0a0`` :depends r-base: ``>=4.3,<4.4.0a0`` :depends r-matrix: :requirements: .. rubric:: Installation You need a conda-compatible package manager (currently either `micromamba `_, `mamba `_, or `conda `_) and the Bioconda channel already activated (see :ref:`set-up-channels`). While any of above package managers is fine, it is currently recommended to use either micromamba or mamba (see `here `_ for installation instructions). We will show all commands using mamba below, but the arguments are the same for the two others. Given that you already have a conda environment in which you want to have this package, install with:: mamba install bioconductor-hdf5array and update with:: mamba update bioconductor-hdf5array To create a new environment, run:: mamba create --name myenvname bioconductor-hdf5array with ``myenvname`` being a reasonable name for the environment (see e.g. the `mamba docs `_ for details and further options). Alternatively, use the docker container:: docker pull quay.io/biocontainers/bioconductor-hdf5array: (see `bioconductor-hdf5array/tags`_ for valid values for ````) .. |downloads_bioconductor-hdf5array| image:: https://img.shields.io/conda/dn/bioconda/bioconductor-hdf5array.svg?style=flat :target: https://anaconda.org/bioconda/bioconductor-hdf5array :alt: (downloads) .. |docker_bioconductor-hdf5array| image:: https://quay.io/repository/biocontainers/bioconductor-hdf5array/status :target: https://quay.io/repository/biocontainers/bioconductor-hdf5array .. _`bioconductor-hdf5array/tags`: https://quay.io/repository/biocontainers/bioconductor-hdf5array?tab=tags .. raw:: html Download stats ----------------- .. raw:: html :file: ../../templates/package_dashboard.html Link to this page ----------------- Render an |install-with-bioconda| badge with the following MarkDown:: [![install with bioconda](https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat)](http://bioconda.github.io/recipes/bioconductor-hdf5array/README.html) .. |install-with-bioconda| image:: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat :target: http://bioconda.github.io/recipes/bioconductor-hdf5array/README.html