recipe bioconductor-scanmirapp

scanMiR shiny application

Homepage:

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

License:

GPL-3

Recipe:

/bioconductor-scanmirapp/meta.yaml

A shiny interface to the scanMiR package. The application enables the scanning of transcripts and custom sequences for miRNA binding sites, the visualization of KdModels and binding results, as well as browsing predicted repression data. In addition contains the IndexedFst class for fast indexed reading of large GenomicRanges or data.frames, and some utilities for facilitating scans and identifying enriched miRNA-target pairs.

package bioconductor-scanmirapp

Versions:

1.4.0-0,  1.0.0-0

Depends:

• bioconductor-annotationdbi >=1.60.0,<1.61.0

• bioconductor-annotationfilter >=1.22.0,<1.23.0

• bioconductor-annotationhub >=3.6.0,<3.7.0

• bioconductor-biocparallel >=1.32.0,<1.33.0

• bioconductor-biostrings >=2.66.0,<2.67.0

• bioconductor-ensembldb >=2.22.0,<2.23.0

• bioconductor-genomeinfodb >=1.34.0,<1.35.0

• bioconductor-genomicfeatures >=1.50.0,<1.51.0

• bioconductor-genomicranges >=1.50.0,<1.51.0

• bioconductor-iranges >=2.32.0,<2.33.0

• bioconductor-rtracklayer >=1.58.0,<1.59.0

• bioconductor-s4vectors >=0.36.0,<0.37.0

• bioconductor-scanmir >=1.4.0,<1.5.0

• bioconductor-scanmirdata >=1.4.0,<1.5.0

• r-base >=4.2,<4.3.0a0

• r-data.table

• r-digest

• r-dt

• r-fst

• r-ggplot2

• r-htmlwidgets

• r-matrix

• r-plotly

• r-rintrojs

• r-shiny

• r-shinycssloaders

• r-shinydashboard

• r-shinyjqui

• r-waiter

Required By:

Installation

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

conda install bioconductor-scanmirapp

and update with:

conda update bioconductor-scanmirapp

or use the docker container:

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

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