BioCube Refuge and Canister filter

[whisenhunt]

recently picked up a nice canister filter for cheaper then it should have been couldn't pass it up , Now my question is can I turn the back of my biocube into a large refugium taking out all the media just running rubble rock or mud and a lot of chato and other moss. Then running all my media in my canister filter? I know I need to stay up on changing and cleaning my canister out to make it not a nitrate magnate

it is a 32 gallon led biocube set up with coral and fish

thanks so much for your input