recipe bioconductor-enrichdo

a Global Weighted Model for Disease Ontology Enrichment Analysis

Homepage:

https://bioconductor.org/packages/3.20/bioc/html/EnrichDO.html

License:

MIT + file LICENSE

Recipe:

/bioconductor-enrichdo/meta.yaml

To implement disease ontology (DO) enrichment analysis, this package is designed and presents a double weighted model based on the latest annotations of the human genome with DO terms, by integrating the DO graph topology on a global scale. This package exhibits high accuracy that it can identify more specific DO terms, which alleviates the over enriched problem. The package includes various statistical models and visualization schemes for discovering the associations between genes and diseases from biological big data.

package bioconductor-enrichdo

versions:

1.0.0-0

depends bioconductor-biocgenerics:

>=0.52.0,<0.53.0

depends bioconductor-clusterprofiler:

>=4.14.0,<4.15.0

depends bioconductor-graph:

>=1.84.0,<1.85.0

depends bioconductor-rgraphviz:

>=2.50.0,<2.51.0

depends bioconductor-s4vectors:

>=0.44.0,<0.45.0

depends r-base:

>=4.4,<4.5.0a0

depends r-dplyr:

depends r-ggplot2:

depends r-hash:

depends r-magrittr:

depends r-pheatmap:

depends r-purrr:

depends r-rcolorbrewer:

depends r-readr:

depends r-stringr:

depends r-tidyr:

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-enrichdo

and update with::

   mamba update bioconductor-enrichdo

To create a new environment, run:

mamba create --name myenvname bioconductor-enrichdo

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-enrichdo:<tag>

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

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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-enrichdo/README.html)