recipe bioconductor-fraser

Find RAre Splicing Events in RNA-Seq Data

Homepage

https://bioconductor.org/packages/3.13/bioc/html/FRASER.html

License

MIT + file LICENSE

Recipe

/bioconductor-fraser/meta.yaml

Links

https: :https:`//doi.org/10.1038/s41467-020-20573-7`

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

1.4.0-0,  1.2.1-1,  1.2.1-0,  1.2.0-0,  1.0.1-0,  1.0.0-0

Depends

• bioconductor-annotationdbi >=1.54.0,<1.55.0

• bioconductor-biobase >=2.52.0,<2.53.0

• bioconductor-biocgenerics >=0.38.0,<0.39.0

• bioconductor-biocparallel >=1.26.0,<1.27.0

• bioconductor-biomart >=2.48.0,<2.49.0

• bioconductor-bsgenome >=1.60.0,<1.61.0

• bioconductor-delayedarray >=0.18.0,<0.19.0

• bioconductor-delayedmatrixstats >=1.14.0,<1.15.0

• bioconductor-genomeinfodb >=1.28.0,<1.29.0

• bioconductor-genomicalignments >=1.28.0,<1.29.0

• bioconductor-genomicfeatures >=1.44.0,<1.45.0

• bioconductor-genomicranges >=1.44.0,<1.45.0

• bioconductor-hdf5array >=1.20.0,<1.21.0

• bioconductor-iranges >=2.26.0,<2.27.0

• bioconductor-outrider >=1.10.0,<1.11.0

• bioconductor-pcamethods >=1.84.0,<1.85.0

• bioconductor-rhdf5 >=2.36.0,<2.37.0

• bioconductor-rsamtools >=2.8.0,<2.9.0

• bioconductor-rsubread >=2.6.0,<2.7.0

• bioconductor-s4vectors >=0.30.0,<0.31.0

• bioconductor-summarizedexperiment >=1.22.0,<1.23.0

• libblas >=3.8.0,<4.0a0

• libgcc-ng >=9.3.0

• liblapack >=3.8.0,<4.0a0

• libstdcxx-ng >=9.3.0

• r-base >=4.1,<4.2.0a0

• r-bbmisc

• r-cowplot

• r-data.table

• r-extradistr

• r-generics

• r-ggplot2

• r-ggrepel

• r-matrixstats

• r-pheatmap

• r-plotly

• r-prroc

• r-r.utils

• r-rcolorbrewer

• r-rcpp

• r-rcpparmadillo

• r-tibble

• r-vgam

Required By

• drop

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>)

Download stats

Link to this page

Render an badge with the following MarkDown:

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