Hello Monks, I have to complete a project involving the calculation of synonymous versus non-synonomous mutations present in a sequence dataset when compared to a particular reference sequence. The idea would be to compare a reference sequence to an alignment and get information about each mutation that arrises. Does anyone know of a good Bioperl module or some other perl based script that would be of use in calculating Non-synonomous/ synonomous for an alignment? Any help would be greatly appreciated. Thanks!