recipe bioconductor-splinter

Splice Interpreter of Transcripts

Homepage:

https://bioconductor.org/packages/3.14/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:

1.20.0-0,  1.18.0-0,  1.16.0-1,  1.16.0-0,  1.14.0-0,  1.12.0-0,  1.10.0-1,  1.8.0-0,  1.6.0-0, 

1.20.0-0,  1.18.0-0,  1.16.0-1,  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 >=2.50.0,<2.51.0

• bioconductor-biostrings >=2.62.0,<2.63.0

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

• bioconductor-genomeinfodb >=1.30.0,<1.31.0

• bioconductor-genomicalignments >=1.30.0,<1.31.0

• bioconductor-genomicfeatures >=1.46.0,<1.47.0

• bioconductor-genomicranges >=1.46.0,<1.47.0

• bioconductor-gviz >=1.38.0,<1.39.0

• bioconductor-iranges >=2.28.0,<2.29.0

• bioconductor-s4vectors >=0.32.0,<0.33.0

• bioconductor-seqlogo >=1.60.0,<1.61.0

• r-base >=4.1,<4.2.0a0

• r-ggplot2

• r-googlevis

• r-plyr

• r-stringr

Required By:

Installation

With an activated Bioconda channel (see 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>)

Download stats

Link to this page

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