- recipe bioconductor-transite
RNA-binding protein motif analysis
- Homepage:
https://bioconductor.org/packages/3.18/bioc/html/transite.html
- License:
MIT + file LICENSE
- Recipe:
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:
- additional platforms:
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>``)
Download stats¶
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)