recipe bioconductor-biocset

Representing Different Biological Sets






BiocSet displays different biological sets in a triple tibble format. These three tibbles are `element`, `set`, and `elementset`. The user has the abilty to activate one of these three tibbles to perform common functions from the dplyr package. Mapping functionality and accessing web references for elements/sets are also available in BiocSet.

package bioconductor-biocset

(downloads) docker_bioconductor-biocset



depends bioconductor-annotationdbi:


depends bioconductor-biocio:


depends bioconductor-keggrest:


depends bioconductor-s4vectors:


depends r-base:


depends r-dplyr:

depends r-ontologyindex:

depends r-plyr:

depends r-rlang:

depends r-tibble:

depends r-tidyr:



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-biocset

and update with::

   mamba update bioconductor-biocset

To create a new environment, run:

mamba create --name myenvname bioconductor-biocset

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<tag>

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

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