recipe bioconductor-rgntx

Colocalization analysis of transcriptome elements in the presence of isoform heterogeneity and ambiguity

Homepage:

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

License:

Artistic-2.0

Recipe:

/bioconductor-rgntx/meta.yaml

RgnTX allows the integration of transcriptome annotations so as to model the complex alternative splicing patterns. It supports the testing of transcriptome elements without clear isoform association, which is often the real scenario due to technical limitations. It involves functions that do permutaion test for evaluating association between features and transcriptome regions.

package bioconductor-rgntx

Versions:

1.0.0-0

Depends:

• 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-regioner >=1.30.0,<1.31.0

• bioconductor-s4vectors >=0.36.0,<0.37.0

• bioconductor-txdb.hsapiens.ucsc.hg19.knowngene >=3.2.0,<3.3.0

• r-base >=4.2,<4.3.0a0

• r-ggplot2

Required By:

Installation

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

conda install bioconductor-rgntx

and update with:

conda update bioconductor-rgntx

or use the docker container:

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

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