recipe bioconductor-motifdb

An Annotated Collection of Protein-DNA Binding Sequence Motifs



Artistic-2.0 | file LICENSE




biotools: motifdb, doi: 10.1038/nmeth.3252

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

package bioconductor-motifdb

(downloads) docker_bioconductor-motifdb



depends bioconductor-biocgenerics:


depends bioconductor-biostrings:


depends bioconductor-genomicranges:


depends bioconductor-iranges:


depends bioconductor-rtracklayer:


depends bioconductor-s4vectors:


depends r-base:


depends r-splitstackshape:



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<tag>

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

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