recipe bioconductor-splicinggraphs

Create, manipulate, visualize splicing graphs, and assign RNA-seq reads to them

Homepage:

https://bioconductor.org/packages/3.14/bioc/html/SplicingGraphs.html

License:

Artistic-2.0

Recipe:

/bioconductor-splicinggraphs/meta.yaml

Links:

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

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.

package bioconductor-splicinggraphs

Versions:

1.34.0-0,  1.32.0-0,  1.30.0-1,  1.30.0-0,  1.28.0-0,  1.25.0-0,  1.24.0-1,  1.22.1-0,  1.20.0-0, 

1.34.0-0,  1.32.0-0,  1.30.0-1,  1.30.0-0,  1.28.0-0,  1.25.0-0,  1.24.0-1,  1.22.1-0,  1.20.0-0,  1.18.0-0

Depends:

• bioconductor-biocgenerics >=0.40.0,<0.41.0

• bioconductor-biocparallel >=1.28.0,<1.29.0

• 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-graph >=1.72.0,<1.73.0

• bioconductor-iranges >=2.28.0,<2.29.0

• bioconductor-rgraphviz >=2.38.0,<2.39.0

• bioconductor-rsamtools >=2.10.0,<2.11.0

• bioconductor-s4vectors >=0.32.0,<0.33.0

• r-base >=4.1,<4.2.0a0

• r-igraph

Required By:

Installation

With an activated Bioconda channel (see 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>)

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