recipe bioconductor-cellbaser

Querying annotation data from the high performance Cellbase web

Homepage:

https://bioconductor.org/packages/3.18/bioc/html/cellbaseR.html

License:

Apache License (== 2.0)

Recipe:

/bioconductor-cellbaser/meta.yaml

This R package makes use of the exhaustive RESTful Web service API that has been implemented for the Cellabase database. It enable researchers to query and obtain a wealth of biological information from a single database saving a lot of time. Another benefit is that researchers can easily make queries about different biological topics and link all this information together as all information is integrated.

package bioconductor-cellbaser

versions:

1.26.0-0,  1.24.0-0,  1.22.0-0,  1.18.0-0,  1.16.0-0,  1.14.0-1,  1.14.0-0,  1.12.0-0,  1.10.0-0, 

1.26.0-0,  1.24.0-0,  1.22.0-0,  1.18.0-0,  1.16.0-0,  1.14.0-1,  1.14.0-0,  1.12.0-0,  1.10.0-0,  1.8.0-1,  1.6.0-0

depends bioconductor-biocparallel:

>=1.36.0,<1.37.0

depends bioconductor-rsamtools:

>=2.18.0,<2.19.0

depends r-base:

>=4.3,<4.4.0a0

depends r-data.table:

depends r-doparallel:

depends r-foreach:

depends r-httr:

depends r-jsonlite:

depends r-pbapply:

depends r-r.utils:

depends r-tidyr:

requirements:

Installation

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-cellbaser

and update with::

   mamba update bioconductor-cellbaser

To create a new environment, run:

mamba create --name myenvname bioconductor-cellbaser

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-cellbaser:<tag>

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

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