- 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
- 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
- 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:
[](http://bioconda.github.io/recipes/bioconductor-splicinggraphs/README.html)