Emergent Neural Network Simulation System
grey.colorado.edu
grey.colorado.edu
Although Emergent claims to help creating models of cognitive processes, it still seems like one of the "low-level" NN libraries (evidently, it is listed alongside FANN and Matlab NNT). I have very superficial exposure to this stuff, but they seem quite a bit removed from creating complex simulations, unless you already have a detailed, theoretical model of particular cognitive processes, which would probably also be isolated models.
On the other hand there's ACT-R and SOAR, which seem to fit the description better. Or am I mistaken?
By the way, for those interested, ACT-R is aimed at providing a comprehensive whole-brain simulator, and runs on common lisp-based NN.
That said, I think there's a way to come at multiple higher-level functions in one complex NN model if you respected anatomical localization of function (and perhaps quasi-modularity). Randy O'Reilly (http://psych.colorado.edu/~oreilly/), part of the lead group that put this package together, has done some great work along these lines.