recipe bioconductor-transite

RNA-binding protein motif analysis

Homepage:

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

License:

MIT + file LICENSE

Recipe:

/bioconductor-transite/meta.yaml

transite is a computational method that allows comprehensive analysis of the regulatory role of RNA-binding proteins in various cellular processes by leveraging preexisting gene expression data and current knowledge of binding preferences of RNA-binding proteins.

package bioconductor-transite

versions:

1.20.0-0,  1.18.0-0,  1.16.0-1,  1.16.0-0,  1.12.1-1,  1.12.1-0,  1.12.0-0,  1.10.0-0,  1.8.0-2, 

1.20.0-0,  1.18.0-0,  1.16.0-1,  1.16.0-0,  1.12.1-1,  1.12.1-0,  1.12.0-0,  1.10.0-0,  1.8.0-2,  1.8.0-1,  1.8.0-0,  1.6.1-0,  1.4.0-0,  1.2.0-1,  1.0.1-0

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-genomicranges:

>=1.54.0,<1.55.0

depends bioconductor-genomicranges:

>=1.54.1,<1.55.0a0

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-dplyr:

>=0.7.6

depends r-ggplot2:

>=3.0.0

depends r-ggseqlogo:

>=0.1

depends r-gridextra:

>=2.3

depends r-rcpp:

>=1.0.4.8

depends r-scales:

>=1.0.0

depends r-tfmpvalue:

>=0.0.8

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-transite

and update with::

   mamba update bioconductor-transite

To create a new environment, run:

mamba create --name myenvname bioconductor-transite

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-transite:<tag>

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

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Link to this page

Render an badge with the following MarkDown:

[![install with bioconda](https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat)](http://bioconda.github.io/recipes/bioconductor-transite/README.html)