Discussions - cytoscape-discuss

	How to create a graph and increment node and edge's size during creation
	Hi, someone has an example of how to do this thing with cytoscape classes? I cannot enter Cytoscape plugin and can't find anyone posted a question like mine. I explored Cytoscape API but really I can't solve the problem. Someone says me to use a VisualStyle but it's not possible only with methods... more » By Franktwis - Nov 7 - 1 new of 1 message

	PSICQUIC Universal Client Test Release
	Hi. Here is the alpha version of PSICQUIC Universal client for Cytoscape. [link] PSICQUIC is a standardized web service for molecular interaction databases. Major interaction data providers are involving this project and you can search latest datasets from multiple databases by... more » By Keiichiro Ono - Nov 6 - 1 new of 1 message

	What does an edge mean?
	Am new to Cytoscape.... Taking for example a protein-protein interaction network created from multiple databases, If two nodes are connected by two edges what does this mean? Does it mean that there are 2 separate experiments to supporting the interaction? or does it mean that there are 2 separate data sources (which in... more » By Martin MacGuill - Nov 6 - 4 new of 4 messages

	Cytoscape Tutorial Video for Users and Developers
	Hi. We are planning to make some tutorial video for both users and developers something like the following: For Users: [link] For Developers: [link] Please let me know if you have any comments. Answers for the following question is very helpful: - What kind of information/tutorial do you need?... more » By Keiichiro Ono - Nov 3 - 3 new of 3 messages

	Plug-in Development in Eclipse
	Hi, I have a question regarding how to set up Eclipse to develop Cytoscape plug-ins. I've followed the directions in the tutorial here: [link]. I know this is from 2005 but I can't find any other relevant documentation. I have set up everything as the tutorial says and the plug-in loads... more » By Michael Verdicchio - Nov 3 - 1 new of 1 message

	Use of Cytoscape Graph
	Hi, I'm new on this forum and for Cytoscape. I'm trying to construct a graph for visualizing it with Cytoscape but I'm not sure of what classes to use. Someone as a link to a tutorial ? or can tell me what class use to construct a graph and display it? I tried to see the tutorial on the web page at cytoscape.org but I... more » By Franktwis - Nov 3 - 2 new of 2 messages

Setting Attributes to nodes and edges dimensions and visualizing them

Hi, I want to build a Graph and setting size of nodes and edge varying after some operations. If I create a bunch of CyNodes using the Cytoscape.getCyNode() method, then create edges using those nodes with the Cytoscape.getCyEdge() method. Then, call Cytoscape.createNetwork() with the lists of nodes and edges I just created. Once I've got the CyNodes... more »

By Franktwis - Nov 3 - 3 new of 3 messages

	Export TexFlame graph in Cytoscape compatible XGMML format
	Dear Cytoscape group members, We are pleased to offer TexFlame, a on-line service, free to individuals, that renders a single PubMed abstract as a SBGN-like graph. We also offer users to export TexFlame graphs in XGMML format which can be viewed in Cytoscape. Availability: [link]... more » By Ravi - Oct 31 - 4 new of 4 messages

	Cytoscape Official Twitter Account
	Hi. Here is the official announcement account for Cytoscape project: [link] Feel free to follow. Kei By Keiichiro Ono - Oct 30 - 3 new of 3 messages

	TheBioGRID Plugin for Cytoscape
	I just found an importer for TheBioGRID data. [link] By michael.boelling - Oct 30 - 1 new of 1 message