But actually i don't see any important difference between these folders except the name of some files! The top module of both folders have instantiated the controller and the traffic generator for testing. So which module is appropriate for start of my design?! Both are too complicated that i can't use in my design!
Any hint please?
I haven't used the Virtex-6 MIG so I can't tell you for sure. The MIG is different for every FPGA family, but I think that if you are already familiar with Xilinx cores in general and HDL you shouldn't have much trouble moving from one MIG to another, at least if you are building a design from scratch and don't have to support multiple MIGs.