recipe bioconductor-rcy3

Functions to Access and Control Cytoscape

Homepage:

https://bioconductor.org/packages/3.18/bioc/html/RCy3.html

License:

MIT + file LICENSE

Recipe:

/bioconductor-rcy3/meta.yaml

Vizualize, analyze and explore networks using Cytoscape via R. Anything you can do using the graphical user interface of Cytoscape, you can now do with a single RCy3 function.

package bioconductor-rcy3

versions:

2.22.1-0,  2.20.0-0,  2.18.0-0,  2.14.0-0,  2.12.0-0,  2.10.2-0,  2.10.0-0,  2.8.0-0,  2.6.0-0, 

2.22.1-0,  2.20.0-0,  2.18.0-0,  2.14.0-0,  2.12.0-0,  2.10.2-0,  2.10.0-0,  2.8.0-0,  2.6.0-0,  2.4.3-0,  2.2.9-0,  2.2.6-0,  2.0.88-0,  1.8.0-0

depends bioconductor-biocgenerics:

>=0.48.0,<0.49.0

depends bioconductor-graph:

>=1.80.0,<1.81.0

depends cytoscape:

>=3.7.1

depends r-base:

>=4.3,<4.4.0a0

depends r-base64enc:

depends r-base64url:

depends r-fs:

depends r-glue:

depends r-gplots:

depends r-httr:

depends r-irdisplay:

depends r-irkernel:

depends r-rcolorbrewer:

depends r-rcurl:

depends r-rjsonio:

depends r-stringi:

depends r-uuid:

depends r-xml:

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-rcy3

and update with::

   mamba update bioconductor-rcy3

To create a new environment, run:

mamba create --name myenvname bioconductor-rcy3

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-rcy3:<tag>

(see `bioconductor-rcy3/tags`_ for valid values for ``<tag>``)

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Link to this page

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