Transparent Mikrotik running Hotspot

Good day,

I have a small WISP running and would like to add in a MikroTIK because of the layer 7 controls on torrent applications. The current setup is simple with my ClearOS box as my gateway to my network. I wish to add the MikroTIK in transparent mode so as not to change any configs on the ClearOS box and so that clients info is captured directly to the ClearOS box.

So far I have done this and am filtering torrent applications. Hooray. Now I wonder if it possible to have Hotspot running off of the same MikroTIK even though it is in transparent mode. (Much similar to http://wiki.mikrotik.com/wiki/TransparentTrafficShaper)

Thanks in advance.