recipe bioconductor-anvil

Bioconductor on the AnVIL compute environment






The AnVIL is a cloud computing resource developed in part by the National Human Genome Research Institute. The AnVIL package provides end-user and developer functionality. For the end-user, AnVIL provides fast binary package installation, utitlities for working with Terra / AnVIL table and data resources, and convenient functions for file movement to and from Google cloud storage. For developers, AnVIL provides programatic access to the Terra, Leonardo, Rawls, and Dockstore RESTful programming interface, including helper functions to transform JSON responses to formats more amenable to manipulation in R.

package bioconductor-anvil

(downloads) docker_bioconductor-anvil



depends r-base:


depends r-biocmanager:

depends r-dplyr:

depends r-dt:

depends r-futile.logger:

depends r-htmltools:

depends r-httr:

depends r-jsonlite:

depends r-miniui:

depends r-rapiclient:


depends r-rlang:

depends r-shiny:

depends r-tibble:

depends r-tidyr:

depends r-tidyselect:



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-anvil

and update with::

   mamba update bioconductor-anvil

To create a new environment, run:

mamba create --name myenvname bioconductor-anvil

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

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