recipe bioconductor-rhdf5client

Access HDF5 content from HDF Scalable Data Service






This package provides functionality for reading data from HDF Scalable Data Service from within R. The HSDSArray function bridges from HSDS to the user via the DelayedArray interface. Bioconductor manages an open HSDS instance graciously provided by John Readey of the HDF Group.

package bioconductor-rhdf5client

(downloads) docker_bioconductor-rhdf5client



depends bioconductor-delayedarray:


depends bioconductor-delayedarray:


depends libblas:


depends libgcc-ng:


depends liblapack:


depends r-base:


depends r-data.table:

depends r-httr:

depends r-rjson:



You need a conda-compatible package manager (currently either micromamba, mamba, or conda) and the Bioconda channel already activated (see 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-rhdf5client

and update with::

   mamba update bioconductor-rhdf5client

To create a new environment, run:

mamba create --name myenvname bioconductor-rhdf5client

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<tag>

(see `bioconductor-rhdf5client/tags`_ for valid values for ``<tag>``)

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