ReNe toolbox allows for gene network topology reconstruction under Dynamic Bayesian Network (DBN) and Stochastic Logical Networks paradigm. It is written in python, and distributed under GNU GPL Library version 2.
The software is currently in an early stage of development, but you can download it from here. The main programs are bayes.py and SLN.py. You can see an example use of the software by examining the file article.py, which is also a supplementary material to one of our articles.
There is also a Web interface allowing network reconstruction using Stochastic logical networks available. In order to test it, you only need to provide an input file containing discretized expression time-series (example file) and your e-mail address. The resulting network (in a SIF format readable by Cytoscape) will be sent to your e-mail address.