recipe bioconductor-reactomegsa.data

Companion data package for the ReactomeGSA package

Homepage:

https://bioconductor.org/packages/3.17/data/experiment/html/ReactomeGSA.data.html

License:

Artistic-2.0

Recipe:

/bioconductor-reactomegsa.data/meta.yaml

Companion data sets to showcase the functionality of the ReactomeGSA package. This package contains proteomics and RNA-seq data of the melanoma B-cell induction study by Griss et al. and scRNA-seq data from Jerby-Arnon et al.

package bioconductor-reactomegsa.data

(downloads) docker_bioconductor-reactomegsa.data

versions:

1.14.0-0,  1.11.0-0,  1.8.0-1,  1.8.0-0,  1.6.0-0,  1.4.0-1,  1.4.0-0,  1.2.0-0,  1.0.0-0

depends bioconductor-data-packages:

>=20230706

depends bioconductor-edger:

>=3.42.0,<3.43.0

depends bioconductor-limma:

>=3.56.0,<3.57.0

depends bioconductor-reactomegsa:

>=1.14.0,<1.15.0

depends curl:

depends r-base:

>=4.3,<4.4.0a0

depends r-seurat:

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 bioconductor-reactomegsa.data

and update with::

   mamba update bioconductor-reactomegsa.data

To create a new environment, run:

mamba create --name myenvname bioconductor-reactomegsa.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/bioconductor-reactomegsa.data:<tag>

(see `bioconductor-reactomegsa.data/tags`_ for valid values for ``<tag>``)

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Link to this page

Render an install-with-bioconda badge with the following MarkDown:

[![install with bioconda](https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat)](http://bioconda.github.io/recipes/bioconductor-reactomegsa.data/README.html)