Agent/investor deal logistics?

[Wade Funk]

Howdy BiggerPockets folks!

I'm an agent and investor.  I'm considering buying a piece of commercial property (50/50 with a partner).  It's a small piece in my hometown.  The goal is to buy it at a discount, repair it, and rent it out.  Once I get the Cap Rate up, we may sell it to get the cap gains out of it for a bigger project.  

My question(s) are around being an owner/agent in this deal.  As an agent, what happens with the commission?  Do I get that back in the form of a credit toward the down payment?  Do I negotiate it out of the sales price and not take the commission?  I will have to pay my broker their cut, regardless, so I'm curious/confused on the actual logistics/paperwork of how that will go down.

Thanks in advance!