recipe bioconductor-dorothea

Collection Of Human And Mouse TF Regulons

Homepage:

https://bioconductor.org/packages/3.20/data/experiment/html/dorothea.html

License:

GPL-3 + file LICENSE

Recipe:

/bioconductor-dorothea/meta.yaml

DoRothEA is a gene regulatory network containing signed transcription factor (TF) - target gene interactions. DoRothEA regulons, the collection of a TF and its transcriptional targets, were curated and collected from different types of evidence for both human and mouse. A confidence level was assigned to each TF-target interaction based on the number of supporting evidence.

package bioconductor-dorothea

(downloads) docker_bioconductor-dorothea

versions:
1.18.0-0,  1.14.0-0,  1.12.0-0,  1.10.0-0,  1.6.0-1,  1.6.0-0,  1.4.0-0,  1.2.1-0,  1.2.0-0, 

1.18.0-0,  1.14.0-0,  1.12.0-0,  1.10.0-0,  1.6.0-1,  1.6.0-0,  1.4.0-0,  1.2.1-0,  1.2.0-0,  1.0.0-0

depends bioconductor-bcellviper:

>=1.42.0,<1.43.0

depends bioconductor-data-packages:

>=20241103

depends bioconductor-decoupler:

>=2.12.0,<2.13.0

depends curl:

depends r-base:

>=4.4,<4.5.0a0

depends r-dplyr:

depends r-magrittr:

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-dorothea

and update with::

   mamba update bioconductor-dorothea

To create a new environment, run:

mamba create --name myenvname bioconductor-dorothea

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-dorothea:<tag>

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

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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-dorothea/README.html)