Network inference

Network inference algorithm to address a wide range of network deconvolution problems available through Cyni

Uncover regulatory interactions from time course data

Cytoscape Network Inference Toolbox puts together several tools that allow infering networks from bio data (For Cytoscape 3.1+)

Model-free combinatorial optimization algorithm to infer time-delayed gene regulatory networks from genome-wide time series datasets.

Knowledge-fused Differential Dependency Network

CoNet is a Cytoscape plugin that detects significant associations in presence/absence and abundance matrices.

Infers gene regulatory networks from expression measurements using Bayesian Model Averaging.

Signal Transduction Pathway Finder

Detects master regulators and cis-regulatory interactions

Assess the activity of Telomere Maintenance Mechanisms from gene expression data. Contribute to improvement of TMM pathways