recipe bioconductor-cellxgenedp

Discover and Access Single Cell Data Sets in the cellxgene Data Portal






The cellxgene data portal ( provides a graphical user interface to collections of single-cell sequence data processed in standard ways to 'count matrix' summaries. The cellxgenedp package provides an alternative, R-based inteface, allowind data discovery, viewing, and downloading.

package bioconductor-cellxgenedp

(downloads) docker_bioconductor-cellxgenedp



depends r-base:


depends r-curl:

depends r-dplyr:

depends r-dt:

depends r-httr:

depends r-jsonlite:

depends r-rjsoncons:

depends r-shiny:



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-cellxgenedp

and update with::

   mamba update bioconductor-cellxgenedp

To create a new environment, run:

mamba create --name myenvname bioconductor-cellxgenedp

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-cellxgenedp/tags`_ for valid values for ``<tag>``)

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