recipe bioconductor-ggsc

Visualizing Single Cell Data






Useful functions to visualize single cell and spatial data. It supports both 'SingleCellExperiment' and 'Seurat' objects. It also supports visualizing the data using grammar of graphics implemented in 'ggplot2'.

package bioconductor-ggsc

(downloads) docker_bioconductor-ggsc



depends bioconductor-singlecellexperiment:


depends bioconductor-singlecellexperiment:


depends bioconductor-summarizedexperiment:


depends bioconductor-summarizedexperiment:


depends libblas:


depends libgcc-ng:


depends liblapack:


depends libstdcxx-ng:


depends r-base:


depends r-cli:

depends r-dplyr:

depends r-ggplot2:

depends r-rcpp:

depends r-rcpparmadillo:

depends r-rcppparallel:

depends r-rlang:

depends r-scattermore:

depends r-seurat:

depends r-tibble:

depends r-tidydr:

depends r-tidyr:

depends r-yulab.utils:



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-ggsc

and update with::

   mamba update bioconductor-ggsc

To create a new environment, run:

mamba create --name myenvname bioconductor-ggsc

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

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