Yes, each one of those boards have two STC counters you can use. Take a look at the User Manual of the boards for more information. When looking at the pin diagram for the boards, the counter pins are GPCTRx_.
If you are using LabVIEW, CVI, VB or VC++, when you install NI-DAQ, it will install a lot of counter example programs which will show you how to program the counters.
Brian