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Updated: May 30, 2026

Inherent Dynamics Visualizer, an Interactive Application for Evaluating and Visualizing Outputs from a Gene Regulatory Network Inference Pipeline
Published on: December 7, 2021
NetDS: a Cytoscape plugin to analyze the robustness of dynamics and feedforward/feedback loop structures of
1School of Electrical Engineering, University of Ulsan, 93, Daehak-ro, Nam-gu, Ulsan 680-749.
Summary:
NetDS is a novel Cytoscape plugin that conveniently simulates dynamics related to robustness, and examines structural properties with respect to feedforward/feedback loops. It can evaluate how robustly a network sustains a stable state against mutations by employing a Boolean network model. In addition, the plugin can examine all feedforward/feedback loops appearing in a network and determine whether or not a pair of loops is coupled. Random networks can also be generated to evaluate whether or not an interesting finding in real biological networks is significantly random.
Availability:
NetDS is freely available for non-commercial purposes at http://netds.sourceforge.net/.
Contact:
kwonyk@ulsan.ac.kr
Supplementary Information:
Supplementary data are available at Bioinformatics online.
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