Home
KEGGscape is a Cytoscape App for version 3.x series. It supports KEGG pathway files in KGML format, and reproduces KEGG pathway diagrams as standard network object in Cytoscape. Users can integrate their own data sets with biologists-friendly KEGG Pathway diagrams easily.
Cytoscape has large collection of apps, and you can integrate Cytoscape app of your choice and KEGG pathway visualizations along with powerful Cytoscape core features. A good example for this combination is KEGGscape and Enhanced Graphics (see picture above).
KEGGscape policy is ...
In this point KEGGscape differs from following two KEGG related Cytoscape apps in a fundamental way.
CyKEGGparser currently does not support Global and overview maps, however CyKEGGparser has several additional features, if you have interest in these features please refer http://f1000research.com/articles/3-145/v1
CytoKegg currently does not support signal trunsduction pathways, however CytoKegg has also several additional features, if you have interest in these features please refer http://www.mdpi.com/2073-4409/3/2/563/htm
Currently we don't support background image(like membrane or cellular compartment). We will talk KEGG people about this usage of background image information.
Transcriptome and Metabolome visualization examples are available. To duplicate the processes, please refer...
KEGGscape
- limits the function to reproduce KEGG pathway visual, and supports as many pathways as possible.
- is designed to produce the effect in combination with other app or pipeline