Document Type
Article
Publication Date
1-1-2018
Publication Title
F1000Res
Keywords
App; Automation; Cytoscape; Network Analysis; Network Biology; Network Visualization
Abstract
Cytoscape is the premiere platform for interactive analysis, integration and visualization of network data. While Cytoscape itself delivers much basic functionality, it relies on community-written apps to deliver specialized functions and analyses. To date, Cytoscape's CyREST feature has allowed researchers to write workflows that call basic Cytoscape functions, but provides no access to its high value app-based functions. With Cytoscape Automation, workflows can now call apps that have been upgraded to expose their functionality. This article collection is a resource to assist readers in quickly and economically leveraging such apps in reproducible workflows that scale independently to large data sets and production runs.
Department
Institute for Systems Biology
Recommended Citation
Demchak, Barry; Otasek, David; Pico, Alexander R; Bader, Gary D; Ono, Keiichiro; Settle, Brett; Sage, Eric; Morris, John H; Longabaugh, William; Lopes, Christian; Kucera, Michael; Treister, Adam; Schwikowski, Benno; Molenaar, Piet; and Ideker, Trey, "The Cytoscape Automation app article collection." (2018). Articles, Abstracts, and Reports. 573.
https://digitalcommons.providence.org/publications/573
