recipe bioconductor-netpathminer

NetPathMiner for Biological Network Construction, Path Mining and Visualization

Homepage:

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

License:

GPL (>= 2)

Recipe:

/bioconductor-netpathminer/meta.yaml

Links:

biotools: netpathminer

NetPathMiner is a general framework for network path mining using genome-scale networks. It constructs networks from KGML, SBML and BioPAX files, providing three network representations, metabolic, reaction and gene representations. NetPathMiner finds active paths and applies machine learning methods to summarize found paths for easy interpretation. It also provides static and interactive visualizations of networks and paths to aid manual investigation.

package bioconductor-netpathminer

versions:

1.38.0-2,  1.38.0-1,  1.38.0-0,  1.36.0-0,  1.34.0-1,  1.34.0-0,  1.30.0-2,  1.30.0-1,  1.30.0-0, 

1.38.0-2,  1.38.0-1,  1.38.0-0,  1.36.0-0,  1.34.0-1,  1.34.0-0,  1.30.0-2,  1.30.0-1,  1.30.0-0,  1.28.0-0,  1.26.0-1,  1.26.0-0,  1.24.0-0,  1.22.0-0,  1.20.0-1,  1.20.0-0,  1.18.0-0,  1.16.0-0,  1.14.0-0,  1.12.1-0

depends libblas:

>=3.9.0,<4.0a0

depends libgcc-ng:

>=12

depends liblapack:

>=3.9.0,<4.0a0

depends libstdcxx-ng:

>=12

depends libxml2:

>=2.12.7,<3.0a0

depends r-base:

>=4.3,<4.4.0a0

depends r-igraph:

>=1.0

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-netpathminer

and update with::

   mamba update bioconductor-netpathminer

To create a new environment, run:

mamba create --name myenvname bioconductor-netpathminer

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-netpathminer:<tag>

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

Download stats

Link to this page

Render an 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-netpathminer/README.html)