recipe bioconductor-celldex

Reference Index for Cell Types

Homepage:

https://bioconductor.org/packages/3.18/data/experiment/html/celldex.html

License:

GPL-3

Recipe:

/bioconductor-celldex/meta.yaml

Provides a collection of reference expression datasets with curated cell type labels, for use in procedures like automated annotation of single-cell data or deconvolution of bulk RNA-seq.

package bioconductor-celldex

versions:

1.12.0-0,  1.10.1-0,  1.8.0-0,  1.4.0-1,  1.4.0-0,  1.2.0-0,  1.0.0-1,  1.0.0-0

depends bioconductor-annotationdbi:

>=1.64.0,<1.65.0

depends bioconductor-annotationhub:

>=3.10.0,<3.11.0

depends bioconductor-data-packages:

>=20231203

depends bioconductor-delayedarray:

>=0.28.0,<0.29.0

depends bioconductor-delayedmatrixstats:

>=1.24.0,<1.25.0

depends bioconductor-experimenthub:

>=2.10.0,<2.11.0

depends bioconductor-s4vectors:

>=0.40.0,<0.41.0

depends bioconductor-summarizedexperiment:

>=1.32.0,<1.33.0

depends curl:

depends r-base:

>=4.3,<4.4.0a0

requirements:

additional platforms:

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-celldex

and update with::

   mamba update bioconductor-celldex

To create a new environment, run:

mamba create --name myenvname bioconductor-celldex

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-celldex:<tag>

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

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Link to this page

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