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nrnb / GoogleSummerOfCode

Main documentation site for NRNB GSoC project ideas and resources
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Web service for various layout algorithms #133

Closed ugurdogrusoz closed 4 years ago

ugurdogrusoz commented 5 years ago

Background

A crucial operation for effective visualization of networks such as biological maps is automatic layout.

Goal

The main aim of this project is to create a web service for automated layout of networks including one for biological networks expressed in the standard notation SBGN. The target layout styles for this project include Compound Spring Embedder [1], AVSDF [2], and Circular Spring Embedder [3].

[1] https://doi.org/10.1016/j.ins.2008.11.017 [2] New circular layout algorithms [3] http://doi.ieeecomputersociety.org/10.1109/TVCG.2012.178

Difficulty Level 2

This project might require conversion of certain algorithms / packages from Java.

Skills

JavaScript and Java (essential) Experience with graph layout algorithms (nice to have)

Public Repository

https://github.com/cytoscape/cytoscape.js-cose-bilkent https://github.com/iVis-at-Bilkent/cytoscape.js-avsdf https://github.com/iVis-at-Bilkent/cytoscape.js-cise https://github.com/iVis-at-Bilkent/chilay

Potential Mentors

Ugur Dogrusoz

Contact

Ugur Dogrusoz

ugurdogrusoz commented 4 years ago

https://summerofcode.withgoogle.com/archive/2019/projects/5027226301497344/ Done as part of GSoC 2019, could be closed!