recipe bioconductor-rlhub

An ExperimentHub package for accessing processed RLSuite data sets

Homepage:

https://bioconductor.org/packages/3.17/data/experiment/html/RLHub.html

License:

MIT + file LICENSE

Recipe:

/bioconductor-rlhub/meta.yaml

| RLHub provides a convenient interface to the processed data provided within RLSuite, a tool-chain for analyzing R-loop-mapping data sets. The primary purpose of RLHub is to serve the processed data sets required by the RLSeq R package and the RLBase web service. Additionally, RLHub provides a stand-alone R interface to these data, benefiting users who are addressing questions related to R-loop regions (RL-Regions), R-loop-binding proteins (RLBPs), R-loop co-localizing factors, and the differences between R-loop-mapping methods. The full data-generating protocol is found here: https://github.com/Bishop-Laboratory/RLBase-data.

package bioconductor-rlhub

(downloads) docker_bioconductor-rlhub

versions:

1.6.0-0,  1.4.0-0,  1.0.0-1,  1.0.0-0

depends bioconductor-annotationhub:

>=3.8.0,<3.9.0

depends bioconductor-data-packages:

>=20230706

depends bioconductor-experimenthub:

>=2.8.0,<2.9.0

depends curl:

depends r-base:

>=4.3,<4.4.0a0

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-rlhub

and update with::

   mamba update bioconductor-rlhub

To create a new environment, run:

mamba create --name myenvname bioconductor-rlhub

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-rlhub:<tag>

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