recipe bioconductor-mousethymusageing

Single-cell Transcriptomics Data of the Ageing Mouse Thymus






This package provides data access to counts matrices and meta-data for single-cell RNA sequencing data of thymic epithlial cells across mouse ageing using SMARTseq2 and 10X Genommics chemistries. Access is provided as a data package via ExperimentHub. It is designed to facilitate the re-use of data from Baran-Gale _et al._ in a consistent format that includes relevant and informative meta-data.

package bioconductor-mousethymusageing

(downloads) docker_bioconductor-mousethymusageing



depends bioconductor-biocgenerics:


depends bioconductor-data-packages:


depends bioconductor-experimenthub:


depends bioconductor-s4vectors:


depends bioconductor-singlecellexperiment:


depends bioconductor-summarizedexperiment:


depends curl:

depends r-base:




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-mousethymusageing

and update with::

   mamba update bioconductor-mousethymusageing

To create a new environment, run:

mamba create --name myenvname bioconductor-mousethymusageing

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

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