DeltaNet is a network analysis tool for predicting genetic perturbations from gene expression data.
REDEMPTION is a MATLAB toolbox for the identification of parameters and parameter ensembles of ODE models from time-series data.
REDUCE is an algorithm for optimal design of gene knock-outs for gene regulatory network inference.
SINCERITIES is a tool for inferring gene regulatory networks from time-stamped cross-sectional single cell transcriptional expression profiles.
TRaCE is an algorithm for ensemble inference of gene regulatory network.