I wish to do graph alignment using the R package GraphAlignment. As an input, it wants the node similarity matrix. I have 4 adjacency matrices, with same vertices (1000 in number) and will have to compute node similarity matrix for each possible pair. I tried my luck with a lot of search, and ended up with some mathematical functions and algorithms to compute it. So, is there any easy way to compute it, or should I use R to compute a matrix using one of the mathematical functions defined to construct a similarity matrix?
Am in a fix, and started to learn R recently. Any help would be appreciated!