recipe bioconductor-ncigraph

Pathways from the NCI Pathways Database

Homepage:

https://bioconductor.org/packages/3.17/bioc/html/NCIgraph.html

License:

GPL-3

Recipe:

/bioconductor-ncigraph/meta.yaml

Links:

biotools: ncigraph, doi: 10.1038/nmeth.3252

Provides various methods to load the pathways from the NCI Pathways Database in R graph objects and to re-format them.

package bioconductor-ncigraph

(downloads) docker_bioconductor-ncigraph

versions:
1.48.0-0,  1.46.0-0,  1.42.0-0,  1.40.0-0,  1.38.0-1,  1.38.0-0,  1.36.0-0,  1.34.0-0,  1.32.0-1, 

1.48.0-0,  1.46.0-0,  1.42.0-0,  1.40.0-0,  1.38.0-1,  1.38.0-0,  1.36.0-0,  1.34.0-0,  1.32.0-1,  1.30.0-1,  1.30.0-0,  1.28.0-0,  1.26.0-0,  1.24.0-0

depends bioconductor-graph:

>=1.78.0,<1.79.0

depends bioconductor-kegggraph:

>=1.60.0,<1.61.0

depends bioconductor-rbgl:

>=1.76.0,<1.77.0

depends bioconductor-rcy3:

>=2.20.0,<2.21.0

depends r-base:

>=4.3,<4.4.0a0

depends r-r.methodss3:

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-ncigraph

and update with::

   mamba update bioconductor-ncigraph

To create a new environment, run:

mamba create --name myenvname bioconductor-ncigraph

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-ncigraph:<tag>

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

Download stats

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-ncigraph/README.html)