recipe bioconductor-rcistarget.hg19.motifdbs.cisbponly.500bp

RcisTarget motif databases for human (hg19) - Subset of 4.6k motifs

Homepage:

https://bioconductor.org/packages/3.18/data/experiment/html/RcisTarget.hg19.motifDBs.cisbpOnly.500bp.html

License:

GPL-3

Recipe:

/bioconductor-rcistarget.hg19.motifdbs.cisbponly.500bp/meta.yaml

RcisTarget databases: Gene-based motif rankings and annotation to transcription factors. This package contains a subset of 4.6k motifs (cisbp motifs), scored only within 500bp upstream and the TSS. See RcisTarget tutorial to download the full databases, containing 20k motifs and search space up to 10kbp around the TSS.

package bioconductor-rcistarget.hg19.motifdbs.cisbponly.500bp

(downloads) docker_bioconductor-rcistarget.hg19.motifdbs.cisbponly.500bp

versions:
1.22.0-0,  1.20.0-0,  1.17.0-0,  1.14.0-1,  1.14.0-0,  1.12.0-0,  1.10.0-1,  1.10.0-0,  1.9.0-0, 

1.22.0-0,  1.20.0-0,  1.17.0-0,  1.14.0-1,  1.14.0-0,  1.12.0-0,  1.10.0-1,  1.10.0-0,  1.9.0-0,  1.8.0-0,  1.6.0-0,  1.4.0-1,  1.4.0-0,  1.2.0-0

depends bioconductor-data-packages:

>=20231203

depends curl:

depends r-base:

>=4.3,<4.4.0a0

depends r-data.table:

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-rcistarget.hg19.motifdbs.cisbponly.500bp

and update with::

   mamba update bioconductor-rcistarget.hg19.motifdbs.cisbponly.500bp

To create a new environment, run:

mamba create --name myenvname bioconductor-rcistarget.hg19.motifdbs.cisbponly.500bp

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-rcistarget.hg19.motifdbs.cisbponly.500bp:<tag>

(see `bioconductor-rcistarget.hg19.motifdbs.cisbponly.500bp/tags`_ for valid values for ``<tag>``)

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Render an install-with-bioconda badge with the following MarkDown:

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