RE: [cytoscape3 - Bug #3802] (Triaged) underlying algorythms
Barry Demchak
Hi, Jonas –
Thanks for asking about this. We don’t have a collection of papers underlying our layouts.
As a starter, you can find the force directed layout paper at http://dx.doi.org/10.1016/0020-0190(89)90102-6 … of course, coding doesn’t follow the paper, exactly.
Does this help?
(I’m transferring this conversation to the Cytoscape Helpdesk (cytoscape...@googlegroups.com) in case you’d like to reply.)
From: cytoscape....@gmail.com [mailto:cytoscape....@gmail.com]
Sent: Thursday, March 30, 2017 9:49 AM
Cc: jonas...@zv.fraunhofer.de
Subject: [cytoscape3 - Bug #3802] (Triaged) underlying algorythms
--Reply above this line--
Issue #3802 has been updated by Barry Demchak.
- Category set to Documentation/Website
- Status changed from New to Triaged
- Assignee set to Barry Demchak
Bug #3802: underlying algorythms
- Author: Barry Demchak
- Status: Triaged
- Priority: Normal
- Assignee: Barry Demchak
- Category: Documentation/Website
- Target version:
- Tags:
- Difficulty:
- Feature Risk:
- Testing Risk:
- Reviewer:
OS: Windows
Cytoscape version: 3.4.0
Hi Team Cytoscape,I do not have any problem with running the program. The only thing I want to know if there is the possibility to prevent my nodes from overlapping each other when I apply different layouts.But my main concern are the algorythms behind the layouts. Is there any possibility to get some papers where the math behind is explained? I know that there are some spring-like applications, but how it really works (in a mathematical way) would interest me the most.Sincerely,Jonas Mair
Reported by: Jonas Mair
Email: jonas...@zv.fraunhofer.de
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