recipe r-seurat-data

Single cell RNA sequencing datasets can be large, consisting of matrices that contain expression data for several thousand features across several thousand cells. This package is designed to easily install, manage, and learn about various single-cell datasets, provided Seurat objects and distributed as independent packages.

Homepage:

http://www.satijalab.org/seurat

Developer docs:

https://github.com/satijalab/seurat-data

License:

GPL3 / GPL-3.0-only

Recipe:

/r-seurat-data/meta.yaml

package r-seurat-data

(downloads) docker_r-seurat-data

versions:

0.2.1-0

depends r-base:

>=4.3,<4.4.0a0

depends r-cli:

depends r-crayon:

depends r-rappdirs:

requirements:

Installation

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 r-seurat-data

and update with::

   mamba update r-seurat-data

To create a new environment, run:

mamba create --name myenvname r-seurat-data

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/r-seurat-data:<tag>

(see `r-seurat-data/tags`_ for valid values for ``<tag>``)

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Link to this page

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