There are a couple of advantages:

1. It's based on Theano, so it's fast. Also you are able to run your code on CPU and GPU.

2. NeuPy supports a lot of algorithms and different layer types (http://neupy.com/docs/cheatsheet.html), so you can easily construct deep neural networks.

3. In the NeuPy it's easy to read and understand network's structure. One of the newest features is a Subnetworks (http://neupy.com/docs/layers/basics.html#subnetworks).

4. Neural Network Surgery is another new feature (http://neupy.com/docs/surgery.html)