recipe bioconductor-hubpub

Utilities to create and use Bioconductor Hubs






HubPub provides users with functionality to help with the Bioconductor Hub structures. The package provides the ability to create a skeleton of a Hub style package that the user can then populate with the necessary information. There are also functions to help add resources to the Hub package metadata files as well as publish data to the Bioconductor S3 bucket.

package bioconductor-hubpub

(downloads) docker_bioconductor-hubpub



depends bioconductor-biocthis:


depends r-available:

depends r-aws.s3:

depends r-base:


depends r-biocmanager:

depends r-dplyr:

depends r-fs:

depends r-usethis:



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-hubpub

and update with::

   mamba update bioconductor-hubpub

To create a new environment, run:

mamba create --name myenvname bioconductor-hubpub

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-hubpub/tags`_ for valid values for ``<tag>``)

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