recipe bioconductor-universalmotif

Import, Modify, and Export Motifs with R

Homepage:

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

License:

GPL-3

Recipe:

/bioconductor-universalmotif/meta.yaml

Allows for importing most common motif types into R for use by functions provided by other Bioconductor motif-related packages. Motifs can be exported into most major motif formats from various classes as defined by other Bioconductor packages. A suite of motif and sequence manipulation and analysis functions are included, including enrichment, comparison, P-value calculation, shuffling, trimming, higher-order motifs, and others.

package bioconductor-universalmotif

versions:

1.20.0-0,  1.18.1-0,  1.16.0-1,  1.16.0-0,  1.12.4-0,  1.12.3-0,  1.12.1-0,  1.10.1-0,  1.8.3-0, 

1.20.0-0,  1.18.1-0,  1.16.0-1,  1.16.0-0,  1.12.4-0,  1.12.3-0,  1.12.1-0,  1.10.1-0,  1.8.3-0,  1.8.0-0,  1.6.3-0,  1.4.0-0,  1.2.1-0,  1.0.12-0

depends bioconductor-biocgenerics:

>=0.48.0,<0.49.0

depends bioconductor-biocgenerics:

>=0.48.1,<0.49.0a0

depends bioconductor-biostrings:

>=2.70.0,<2.71.0

depends bioconductor-biostrings:

>=2.70.1,<2.71.0a0

depends bioconductor-iranges:

>=2.36.0,<2.37.0

depends bioconductor-iranges:

>=2.36.0,<2.37.0a0

depends bioconductor-matrixgenerics:

>=1.14.0,<1.15.0

depends bioconductor-matrixgenerics:

>=1.14.0,<1.15.0a0

depends bioconductor-s4vectors:

>=0.40.0,<0.41.0

depends bioconductor-s4vectors:

>=0.40.2,<0.41.0a0

depends libblas:

>=3.9.0,<4.0a0

depends libgcc-ng:

>=12

depends liblapack:

>=3.9.0,<4.0a0

depends libstdcxx-ng:

>=12

depends r-base:

>=4.3,<4.4.0a0

depends r-ggplot2:

depends r-mass:

depends r-rcpp:

depends r-rcppthread:

depends r-rlang:

depends r-yaml:

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-universalmotif

and update with::

   mamba update bioconductor-universalmotif

To create a new environment, run:

mamba create --name myenvname bioconductor-universalmotif

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-universalmotif:<tag>

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

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