Package Recipe 'bioconductor-splicinggraphs'

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 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>)

Download stats¶

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-splicinggraphs/README.html)