At your consultation, you may have been told that you'll probably need to have your wisdom teeth out. The orthodontic analysis will confirm this, so I'd advise you to have the analysis done first, before having any teeth taken out. Sometimes wisdom teeth can be used for anchorage during orthodontic tooth movement, or the plan may be to align them in the arch.
This answer is for general information. Your own case needs an examination by an orthodontist.