EntOpt Layout

The goal of this project is to implement a graph layout / network visualization algorithm as a Java plugin for Cytoscape (http://cytoscape.org/), using a recently published relative entropy optimization based method, called Unified Data Representation (Kovács IA et al. Sci Rep. 2015). If you are using the plugin, please cite:

Ágg B, Császár A, Szalay-Bekő M, Veres DV, Mizsei R, Ferdinandy P, Csermely P and Kovács IA (2019) The EntOptLayout Cytoscape plug-in for the efficient visualization of major protein complexes in protein-protein interaction and signalling networks, Bioinformatics 35(21):4490-4492
https://academic.oup.com/bioinformatics/article/35/21/4490/5475596

Our detailed Tutorial on the use of the plugin: https://suopte.com/entopt_2_1_tutorial_20200518.pdf

A video about the version 2.1: http://suopte.com/entopt_2_1_tutorial_video.mp4

Don't hesitate to send any questions, comments or bug reports also to agg.bence {at} med.semmelweis-univ.hu.

Features

Relative Entropy Optimization
Network layout
Written in Java
Cytoscape plugin

Project Samples

Project Activity

See All Activity >

Follow EntOpt Layout

EntOpt Layout Web Site

Other Useful Business Software

Auth0 B2B Essentials: SSO, MFA, and RBAC Built In

Unlimited organizations, 3 enterprise SSO connections, role-based access control, and pro MFA included. Dev and prod tenants out of the box.

Auth0's B2B Essentials plan gives you everything you need to ship secure multi-tenant apps. Unlimited orgs, enterprise SSO, RBAC, audit log streaming, and higher auth and API limits included. Add on M2M tokens, enterprise MFA, or additional SSO connections as you scale.

Rate This Project

User Reviews

Be the first to post a review of EntOpt Layout!

Additional Project Details

User Interface

Java Swing, Plugins

Programming Language

Java

Related Categories

Java Algorithms, Java Data Visualization Software

Registered

2015-01-10

Similar Business Software

Apify

Apify is a full-stack web scraping and automation platform helping anyone get value from the web. At its core is Apify Store, a marketplace with over 10,000 Actors where developers build, publish, and monetize automation tools. Actors are serverless cloud programs that extract data, automate...

See Software
ManageEngine OpManager

OpManager is a network management tool geared to monitor your entire network. Ensure all devices operate at peak health, performance, and availability. The extensive network monitoring capabilities lets you track performance of switches, routers, LANs, WLCs, IP addresses, and...

See Software
DbVisualizer

DbVisualizer is a universal database client for anyone who works with data, from solo developers and startups to professional teams managing complex environments, including developers, DBAs, analysts, and data engineers working with relational and NoSQL databases. It offers a graphical interface...

See Software
Bitrise

Bitrise is a CI/CD platform built for mobile development, helping teams speed up builds, automate testing, and deliver high-quality apps faster. It supports native languages like Swift, Objective-C, Java, and Kotlin, as well as cross-platform frameworks including React Native, Flutter, Xamarin,...

See Software
Highcharts

Highcharts is a JavaScript charting library that allows developers to create interactive and visually appealing charts for web applications. It offers a wide range of chart types, including line charts, bar charts, pie charts, scatter plots, and more. It also supports different types of data,...

See Software
Google Cloud Platform

Google Cloud is a cloud-based service that allows you to create anything from simple websites to complex applications for businesses of all sizes. New customers get $300 in free credits to run, test, and deploy workloads. All customers can use 25+ products for free, up to monthly usage...

See Software