recipe bioconductor-scanmir

scanMiR

Homepage:

https://bioconductor.org/packages/3.16/bioc/html/scanMiR.html

License:

GPL-3

Recipe:

/bioconductor-scanmir/meta.yaml

A set of tools for working with miRNA affinity models (KdModels), efficiently scanning for miRNA binding sites, and predicting target repression. It supports scanning using miRNA seeds, full miRNA sequences (enabling 3' alignment) and KdModels, and includes the prediction of slicing and TDMD sites. Finally, it includes utility and plotting functions (e.g. for the visual representation of miRNA-target alignment).

package bioconductor-scanmir

Versions:

1.4.0-0,  1.0.0-0

Depends:

• bioconductor-biocparallel >=1.32.0,<1.33.0

• bioconductor-biostrings >=2.66.0,<2.67.0

• bioconductor-genomeinfodb >=1.34.0,<1.35.0

• bioconductor-genomicranges >=1.50.0,<1.51.0

• bioconductor-iranges >=2.32.0,<2.33.0

• bioconductor-s4vectors >=0.36.0,<0.37.0

• r-base >=4.2,<4.3.0a0

• r-cowplot

• r-data.table

• r-ggplot2

• r-ggseqlogo

• r-stringi

Required By:

• bioconductor-scanmirapp

• bioconductor-scanmirdata

Installation

With an activated Bioconda channel (see set-up-channels), install with:

conda install bioconductor-scanmir

and update with:

conda update bioconductor-scanmir

or use the docker container:

docker pull quay.io/biocontainers/bioconductor-scanmir:<tag>

(see bioconductor-scanmir/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-scanmir/README.html)