recipe bioconductor-ibh

Interaction Based Homogeneity for Evaluating Gene Lists

Homepage:

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

License:

GPL (>= 2)

Recipe:

/bioconductor-ibh/meta.yaml

Links:

biotools: ibh, doi: 10.1038/nmeth.3252

This package contains methods for calculating Interaction Based Homogeneity to evaluate fitness of gene lists to an interaction network which is useful for evaluation of clustering results and gene list analysis. BioGRID interactions are used in the calculation. The user can also provide their own interactions.

package bioconductor-ibh

(downloads) docker_bioconductor-ibh

versions:
1.54.0-0,  1.50.0-0,  1.48.0-0,  1.46.0-0,  1.42.0-0,  1.40.0-0,  1.38.0-2,  1.38.0-0,  1.36.0-0, 

1.54.0-0,  1.50.0-0,  1.48.0-0,  1.46.0-0,  1.42.0-0,  1.40.0-0,  1.38.0-2,  1.38.0-0,  1.36.0-0,  1.34.0-1,  1.32.0-1,  1.32.0-0,  1.30.0-0,  1.28.0-0,  1.26.0-0

depends bioconductor-simpintlists:

>=1.42.0,<1.43.0

depends r-base:

>=4.4,<4.5.0a0

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-ibh

and update with::

   mamba update bioconductor-ibh

To create a new environment, run:

mamba create --name myenvname bioconductor-ibh

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-ibh:<tag>

(see `bioconductor-ibh/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-ibh/README.html)