recipe bioconductor-splicinggraphs

This package allows the user to create, manipulate, and visualize splicing graphs and their bubbles based on a gene model for a given organism. Additionally it allows the user to assign RNA-seq reads to the edges of a set of splicing graphs, and to summarize them in different ways.

Homepage

https://bioconductor.org/packages/3.9/bioc/html/SplicingGraphs.html

License

Artistic-2.0

Recipe

/bioconductor-splicinggraphs/meta.yaml

Links

biotools: splicinggraphs, doi: 10.1093/bioinformatics/18.suppl_1.s181

package bioconductor-splicinggraphs

(downloads) docker_bioconductor-splicinggraphs

Versions

1.22.1-0, 1.20.0-0, 1.18.0-0

Depends bioconductor-biocgenerics

>=0.28.0,<0.29.0

Depends bioconductor-genomeinfodb

>=1.18.0,<1.19.0

Depends bioconductor-genomicalignments

>=1.18.0,<1.19.0

Depends bioconductor-genomicfeatures

>=1.34.0,<1.35.0

Depends bioconductor-genomicranges

>=1.34.0,<1.35.0

Depends bioconductor-graph

>=1.60.0,<1.61.0

Depends bioconductor-iranges

>=2.16.0,<2.17.0

Depends bioconductor-rgraphviz

>=2.26.0,<2.27.0

Depends bioconductor-rsamtools

>=1.34.0,<1.35.0

Depends bioconductor-s4vectors

>=0.20.0,<0.21.0

Depends r-base

>=3.5.1,<3.5.2.0a0

Depends r-igraph

Requirements

Installation

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

conda install bioconductor-splicinggraphs

and update with:

conda update bioconductor-splicinggraphs

or use the docker container:

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

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