SBEToolbox (Systems Biology and Evolution Toolbox) is being developed in MATLAB as a menu-driven GUI software to determine various statistics of the biological network. Some of its features include (but not limited to) algorithms to create random networks (small-world, ring lattice etc..), deduce clusters in the network (MCL, mCode, clusterOne), compute various network topology measures etc... We are releasing the stable version of software. Please check back for updated help information for new / revised functions.
You can be on our development channel and keep your code base updated. Please see the WIKI page on how to check out code on unix based systems (Mac, Linux). Windows users, please refer to TortoiseSVN documentation.
Contact us for any questions / concerns.