What is it about?
This article describes the dot-app Cytoscape app, which enables a user to import a DOT-formatted into Cytoscape and to export a Cytoscape network to a DOT-formatted file. We demonstrated the operation of dot-app and explained its implementation and the limitations of DOT-to-Cytoscape and Cytoscape-to-DOT translation. Finally, we explained typical use cases and how dot-app delivers value in each situation.
Featured Image
Why is it important?
dot-app enables the interchange of networks between Cytoscape and DOT-based applications so that users can benefit from the features of both. dot-app was first deployed to the Cytoscape App Store in August 2015, has since registered more than 1,200 downloads, and has been highly rated by more than 20 users.
Perspectives
We present dot-app as a Cytoscape app that implements both the import and export of graphs encoded in DOT files. We describe the operation of dot-app; how dot-app maps Cytoscape networks to DOT networks and vice versa; issues that arise because of incompatibilities between the Cytoscape and DOT network models; representative use cases; and prospects for future work.
Ziran Zhang
University of California, San Diego
Read the Original
This page is a summary of: dot-app: a Graphviz-Cytoscape conversion plug-in, F1000Research, October 2016, Faculty of 1000, Ltd.,
DOI: 10.12688/f1000research.9751.1.
You can read the full text:
Contributors
The following have contributed to this page
