recipe bioconductor-fraser

Find RAre Splicing Events in RNA-Seq Data

Homepage

https://bioconductor.org/packages/3.11/bioc/html/FRASER.html

License

MIT + file LICENSE

Recipe

/bioconductor-fraser/meta.yaml

Detection of rare aberrant splicing events in transcriptome profiles. The workflow aims to assist the diagnostics in the field of rare diseases where RNA-seq is performed to identify aberrant splicing defects.

package bioconductor-fraser

Versions

1.0.1-0,  1.0.0-0

Depends

• bioconductor-annotationdbi >=1.50.0,<1.51.0

• bioconductor-biobase >=2.48.0,<2.49.0

• bioconductor-biocgenerics >=0.34.0,<0.35.0

• bioconductor-biocparallel >=1.22.0,<1.23.0

• bioconductor-biomart >=2.44.0,<2.45.0

• bioconductor-bsgenome >=1.56.0,<1.57.0

• bioconductor-delayedarray >=0.14.0,<0.15.0

• bioconductor-delayedmatrixstats >=1.10.0,<1.11.0

• bioconductor-genomeinfodb >=1.24.0,<1.25.0

• bioconductor-genomicalignments >=1.24.0,<1.25.0

• bioconductor-genomicfeatures >=1.40.0,<1.41.0

• bioconductor-genomicranges >=1.40.0,<1.41.0

• bioconductor-hdf5array >=1.16.0,<1.17.0

• bioconductor-iranges >=2.22.0,<2.23.0

• bioconductor-pcamethods >=1.80.0,<1.81.0

• bioconductor-rhdf5 >=2.32.0,<2.33.0

• bioconductor-rsamtools >=2.4.0,<2.5.0

• bioconductor-rsubread >=2.2.0,<2.3.0

• bioconductor-s4vectors >=0.26.0,<0.27.0

• bioconductor-summarizedexperiment >=1.18.0,<1.19.0

• libblas >=3.8.0,<4.0a0

• libgcc-ng >=7.5.0

• liblapack >=3.8.0,<3.9.0a0

• libstdcxx-ng >=7.5.0

• r-base >=4.0,<4.1.0a0

• r-bbmisc

• r-cowplot

• r-data.table

• r-extradistr

• r-ggplot2

• r-matrixstats

• r-pheatmap

• r-plotly

• r-prroc

• r-r.utils

• r-rcolorbrewer

• r-rcpp

• r-rcpparmadillo

• r-tibble

• r-vgam

Required By

Installation

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

conda install bioconductor-fraser

and update with:

conda update bioconductor-fraser

or use the docker container:

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

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