recipe bioconductor-bioccheck

Bioconductor-specific package checks






BiocCheck guides maintainers through Bioconductor best practicies. It runs Bioconductor-specific package checks by searching through package code, examples, and vignettes. Maintainers are required to address all errors, warnings, and most notes produced.

package bioconductor-bioccheck

(downloads) docker_bioconductor-bioccheck



depends bioconductor-biocbaseutils:


depends bioconductor-biocfilecache:


depends bioconductor-biocviews:


depends bioconductor-graph:


depends r-base:


depends r-biocmanager:

depends r-callr:

depends r-codetools:

depends r-httr:

depends r-knitr:

depends r-stringdist:



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-bioccheck

and update with::

   mamba update bioconductor-bioccheck

To create a new environment, run:

mamba create --name myenvname bioconductor-bioccheck

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

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