recipe bioconductor-splinter

Splice Interpreter of Transcripts

Homepage

https://bioconductor.org/packages/3.12/bioc/html/SPLINTER.html

License

GPL-2

Recipe

/bioconductor-splinter/meta.yaml

Links

biotools: splinter, doi: 10.1038/nmeth.3252

Provides tools to analyze alternative splicing sites, interpret outcomes based on sequence information, select and design primers for site validiation and give visual representation of the event to guide downstream experiments.

package bioconductor-splinter

Versions

1.16.0-0,  1.14.0-0,  1.12.0-0,  1.10.0-1,  1.8.0-0,  1.6.0-0,  1.4.0-0,  1.2.0-0

Depends

• bioconductor-biomart >=2.46.0,<2.47.0

• bioconductor-biostrings >=2.58.0,<2.59.0

• bioconductor-bsgenome.mmusculus.ucsc.mm9 >=1.4.0,<1.5.0

• bioconductor-genomeinfodb >=1.26.0,<1.27.0

• bioconductor-genomicalignments >=1.26.0,<1.27.0

• bioconductor-genomicfeatures >=1.42.0,<1.43.0

• bioconductor-genomicranges >=1.42.0,<1.43.0

• bioconductor-gviz >=1.34.0,<1.35.0

• bioconductor-iranges >=2.24.0,<2.25.0

• bioconductor-s4vectors >=0.28.0,<0.29.0

• bioconductor-seqlogo >=1.56.0,<1.57.0

• r-base >=4.0,<4.1.0a0

• r-ggplot2

• r-googlevis

• r-plyr

• r-stringr

Required By

Installation

With an activated Bioconda channel (see 2. Set up channels), install with:

conda install bioconductor-splinter

and update with:

conda update bioconductor-splinter

or use the docker container:

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

(see bioconductor-splinter/tags for valid values for <tag>)

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-splinter/README.html)