recipe bioconductor-motifdb

An Annotated Collection of Protein-DNA Binding Sequence Motifs

Homepage:

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

License:

Artistic-2.0 | file LICENSE

Recipe:

/bioconductor-motifdb/meta.yaml

Links:

biotools: motifdb, doi: 10.1038/nmeth.3252

More than 9900 annotated position frequency matrices from 14 public sources, for multiple organisms.

package bioconductor-motifdb

versions:

1.44.0-0,  1.42.0-0,  1.40.0-0,  1.36.0-0,  1.34.0-0,  1.32.0-1,  1.32.0-0,  1.30.0-0,  1.28.0-0, 

1.44.0-0,  1.42.0-0,  1.40.0-0,  1.36.0-0,  1.34.0-0,  1.32.0-1,  1.32.0-0,  1.30.0-0,  1.28.0-0,  1.26.0-1,  1.24.1-0,  1.22.0-0,  1.20.0-0,  1.18.0-0,  1.16.0-0

depends bioconductor-biocgenerics:

>=0.48.0,<0.49.0

depends bioconductor-biostrings:

>=2.70.0,<2.71.0

depends bioconductor-genomicranges:

>=1.54.0,<1.55.0

depends bioconductor-iranges:

>=2.36.0,<2.37.0

depends bioconductor-rtracklayer:

>=1.62.0,<1.63.0

depends bioconductor-s4vectors:

>=0.40.0,<0.41.0

depends r-base:

>=4.3,<4.4.0a0

depends r-splitstackshape:

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-motifdb

and update with::

   mamba update bioconductor-motifdb

To create a new environment, run:

mamba create --name myenvname bioconductor-motifdb

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-motifdb:<tag>

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

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