recipe bioconductor-phenogeneranker

PhenoGeneRanker: A gene and phenotype prioritization tool

Homepage:

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

License:

Creative Commons Attribution 4.0 International License

Recipe:

/bioconductor-phenogeneranker/meta.yaml

This package is a gene/phenotype prioritization tool that utilizes multiplex heterogeneous gene phenotype network. PhenoGeneRanker allows multi-layer gene and phenotype networks. It also calculates empirical p-values of gene/phenotype ranking using random stratified sampling of genes/phenotypes based on their connectivity degree in the network. https://dl.acm.org/doi/10.1145/3307339.3342155.

package bioconductor-phenogeneranker

(downloads) docker_bioconductor-phenogeneranker

versions:

1.10.0-0,  1.8.0-0,  1.6.0-0,  1.2.0-0,  1.0.0-0

depends r-base:

>=4.3,<4.4.0a0

depends r-doparallel:

depends r-dplyr:

depends r-foreach:

depends r-igraph:

depends r-matrix:

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-phenogeneranker

and update with::

   mamba update bioconductor-phenogeneranker

To create a new environment, run:

mamba create --name myenvname bioconductor-phenogeneranker

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-phenogeneranker:<tag>

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