Regulatory Network Analyzer generates/analyzes a regulatory network and states transition network and computes informations like entropy.

Visualize CausalPath (causalpath.org) results in Cytoscape

Single-cell RNASeq analysis in Cytoscape

Knowledge-fused Differential Dependency Network

Combining tissue-specific protein expression and interaction data to identify genes of functional- and disease-relevance

Enrichment analysis and visualization - integrated analysis of multiple sample matched data sets in the context of systematic annotation