enhancedGraphics app & R programming

[arya...@gmail.com]

Hi,

I have a problem with set a chart for nodes of graph in Cytoscape by R coding.
Could you please guide me about it by an sample code?

Thanks,
Y.Aryan

[Alex Pico]

Hi Y,

Here’s how you’d do it using setVisualPropertyDefault().  Obviously, I’d like to create a dedicated function to make this easier to use, but this should work to make a bar chart, for example, in the meantime:

style.name = 'default'

barchart =  list(cyrange = c(-2.426,3.126), cy_colors = c("#FF00FF","#8000FF","#00FF00"),cy_dataColumns = c("gal1RGexp","gal4RGexp","gal80Rexp"))

style.string = list(visualProperty = "NODE_CUSTOMGRAPHICS_1", value = paste("org.cytoscape.BarChart",toJSON(barchart),sep = ":"))

setVisualPropertyDefault(style.string, style.name)

You need to specify the min and max values in ‘cyrange’ and then pair the colors and columns you want in “cy_colors” and “cy_dataColumns”.  Keep everything else the same and it should set the "Image/Chart 1” in the default style. Ah, and you’ll need to install/library the RJSONIO package for toJSON().

 - Alex

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[yalda Aryan]

Hi Alex,

Thank you very much for your help and code.

May you be always prosperous and healthy.

Y.Aryan

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