:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'bioconductor-bugsigdbr' .. highlight: bash bioconductor-bugsigdbr ====================== .. conda:recipe:: bioconductor-bugsigdbr :replaces_section_title: :noindex: 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. .. conda:package:: bioconductor-bugsigdbr |downloads_bioconductor-bugsigdbr| |docker_bioconductor-bugsigdbr| :versions: ``1.8.1-0``,  ``1.6.2-0``,  ``1.4.0-0``,  ``1.0.0-0`` :depends bioconductor-biocfilecache: ``>=2.10.0,<2.11.0`` :depends r-base: ``>=4.3,<4.4.0a0`` :requirements: .. rubric:: Installation You need a conda-compatible package manager (currently either `micromamba `_, `mamba `_, or `conda `_) and the Bioconda channel already activated (see :ref:`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: (see `bioconductor-bugsigdbr/tags`_ for valid values for ````) .. |downloads_bioconductor-bugsigdbr| image:: https://img.shields.io/conda/dn/bioconda/bioconductor-bugsigdbr.svg?style=flat :target: https://anaconda.org/bioconda/bioconductor-bugsigdbr :alt: (downloads) .. |docker_bioconductor-bugsigdbr| image:: https://quay.io/repository/biocontainers/bioconductor-bugsigdbr/status :target: https://quay.io/repository/biocontainers/bioconductor-bugsigdbr .. _`bioconductor-bugsigdbr/tags`: https://quay.io/repository/biocontainers/bioconductor-bugsigdbr?tab=tags .. raw:: html Download stats ----------------- .. raw:: html :file: ../../templates/package_dashboard.html 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) .. |install-with-bioconda| image:: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat :target: http://bioconda.github.io/recipes/bioconductor-bugsigdbr/README.html