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dcppc / data-stewards

Questions and answers about TOPmed, GTEx, and AGR resources.
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Presentation of: interfaces to visualize genetic/physical/regulatory networks from AGR #14

Open owhite opened 6 years ago

owhite commented 6 years ago

This thread to serve as a request for a presentation at the next Data Stewards / DCPPC call on Alliance for Genome Resources (AGR) Supplement Aims. Specific Aim 2: "Development of interactive and programmatic user interfaces to visualize genetic/physical/regulatory networks and extend the data models for eukaryotic metabolic pathways/porting to network representation commonly used data exchange formats in support of FAIR-ness."

Length of presentation: 15 minutes or less.

Call/presentation time TBD.

jmcherry-zz commented 6 years ago

In development can give you a slide or two showing views and billets of code framework. Small project.

ragingsquirrel3 commented 6 years ago

We are in the process of making this a react plugin distributed via npm module but an early version is available on SGD's website on places like this https://www.yeastgenome.org/locus/S000000735/regulation#network. The focus of the npm module will be easy integration. It will consume json data formatted in a similar way to this https://www.yeastgenome.org/backend/locus/1268319/regulation_graph. That should be all that is required for integration. The module will do the work of calculating network layout, animating transitions, making screenshot downloads available. This is a react integration of the popular http://sigmajs.org/ which offers extremely high performance network visualization abilities and much larger networks than other libraries.

Our aim is to simplify this integration, as well as offer features that may be useful for users within the biological domain, and to be able to respond to those needs more than developers of similar plugins.