recipe bioconductor-bugsigdbr

R-side access to published microbial signatures from BugSigDB

Homepage:

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

License:

GPL-3

Recipe:

/bioconductor-bugsigdbr/meta.yaml

The bugsigdbr package implements convenient access to bugsigdb.org from within R/Bioconductor. The goal of the package is to facilitate import of BugSigDB data into R/Bioconductor, provide utilities for extracting microbe signatures, and enable export of the extracted signatures to plain text files in standard file formats such as GMT.

package bioconductor-bugsigdbr

(downloads) docker_bioconductor-bugsigdbr

versions:

1.12.0-0,  1.8.1-0,  1.6.2-0,  1.4.0-0,  1.0.0-0

depends bioconductor-biocfilecache:

>=2.14.0,<2.15.0

depends r-base:

>=4.4,<4.5.0a0

depends r-vroom:

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-bugsigdbr

and update with::

   mamba update bioconductor-bugsigdbr

To create a new environment, run:

mamba create --name myenvname bioconductor-bugsigdbr

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-bugsigdbr:<tag>

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