recipe bioconductor-rcx

R package implementing the Cytoscape Exchange (CX) format

Homepage:

https://bioconductor.org/packages/3.20/bioc/html/RCX.html

License:

MIT + file LICENSE

Recipe:

/bioconductor-rcx/meta.yaml

Create, handle, validate, visualize and convert networks in the Cytoscape exchange (CX) format to standard data types and objects. The package also provides conversion to and from objects of iGraph and graphNEL. The CX format is also used by the NDEx platform, a online commons for biological networks, and the network visualization software Cytocape.

package bioconductor-rcx

versions:

1.10.0-0,  1.6.0-0,  1.4.0-0,  1.2.0-0

depends r-base:

>=4.4,<4.5.0a0

depends r-igraph:

depends r-jsonlite:

depends r-plyr:

requirements:

additional platforms:

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-rcx

and update with::

   mamba update bioconductor-rcx

To create a new environment, run:

mamba create --name myenvname bioconductor-rcx

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-rcx:<tag>

(see `bioconductor-rcx/tags`_ for valid values for ``<tag>``)

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