- recipe bioconductor-transomics2cytoscape
A tool set for 3D Trans-Omic network visualization with Cytoscape
- Homepage:
https://bioconductor.org/packages/3.14/bioc/html/transomics2cytoscape.html
- License:
Artistic-2.0
- Recipe:
transomics2cytoscape generates a file for 3D transomics visualization by providing input that specifies the IDs of multiple KEGG pathway layers, their corresponding Z-axis heights, and an input that represents the edges between the pathway layers. The edges are used, for example, to describe the relationships between kinase on a pathway and enzyme on another pathway. This package automates creation of a transomics network as shown in the figure in Yugi.2014 (https://doi.org/10.1016/j.celrep.2014.07.021) using Cytoscape automation (https://doi.org/10.1186/s13059-019-1758-4).
- package bioconductor-transomics2cytoscape¶
-
- Versions:
1.4.0-0
,1.2.1-0
,1.0.0-1
,1.0.0-0
- Depends:
bioconductor-keggrest
>=1.34.0,<1.35.0
bioconductor-rcy3
>=2.14.0,<2.15.0
r-base
>=4.1,<4.2.0a0
- Required By:
Installation
With an activated Bioconda channel (see set-up-channels), install with:
conda install bioconductor-transomics2cytoscape
and update with:
conda update bioconductor-transomics2cytoscape
or use the docker container:
docker pull quay.io/biocontainers/bioconductor-transomics2cytoscape:<tag>
(see bioconductor-transomics2cytoscape/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-transomics2cytoscape/README.html)