These include GOlorize3, which maps GO terms to pie charts on nodes GenePro4, which visualizes groups of nodes as pie charts VistaClara5, which adds bar graphs to represent expression data and more recently MultiColoredNodes6. Over the years, there have been attempts to support more complex mappings of multiple data values onto node visuals in Cytoscape. This provides an extremely useful mapping between data values and a single visual property, but does not solve the need for more complex visualizations. Introduction Cytoscape1,2 provides support for coloring and sizing nodes and node borders based on data values stored in the Node Table. Competing interests: No competing interests were disclosed. JHM and TEF were funded by NIGMS grant P41-GM103311. Grant information: ARP and JHM were funded by NIGMS grant P41-GM103504. Data associated with the article are available under the terms of the Creative Commons Zero "No rights reserved" data waiver (CC0 1.0 Public domain dedication). This is an open access article distributed under the terms of the Creative Commons Attribution Licence, which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. enhancedGraphics: a Cytoscape app for enhanced node graphics F1000Research 2014, 3:147 (doi: 10.12688/f1000research.4460.1) Copyright: © 2014 Morris JH et al.
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Morris ( ) How to cite this article: Morris JH, Kuchinsky A, Ferrin TE and Pico AR. This article is included in the Cytoscape App CollectionĢ Piet Molenaar, Academic Medical Center NetherlandsĬorresponding author: John H. Charts are drawn using vector graphics to allow full-resolution scaling.ġ Lars Juhl Jensen, University of Copenhagen Denmark It enables users and other app developers to create pie, line, bar, and circle plots that are driven by columns in the Cytoscape Node Table.
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Invited Referee Responses Abstract enhancedGraphics () is a Cytoscape app that implements a series of enhanced charts and graphics that may be added to Cytoscape nodes. Pico3 1Resource for Biocomputing, Visualization and Informatics, University of California, San Francisco, CA 94143, USA 2Agilent Technologies, Santa Clara, CA 95051, USA 3Gladstone Institutes, San Francisco, CA 94158, USAįirst published:, 3:147 (doi: 10.12688/f1000research.4460.1) EnhancedGraphics: a Cytoscape app for enhanced node graphics John H.
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