Thank you for using Braph. Braph uses an FDR correction, which can indicate which edges remain significant after correcting for multiple comparisons. Additionally, one could visualize the subject matrices and check which edges have the strongest weight.
However, as there are many different methods published in the literature regarding selection of most important edges, we implemented Braph 2.0 in a way that would allow you to easy implement any method you prefer. We would be happy to guide you through the process of implementing any method that you think can be best utilized in your research.