Pros/Cons of Installing Wordpress Within Cpanel?

I could swear a long time ago, there was a disadvantage to using the Site Software utility within CPanel/WHM to install Wordpress but I can't remember what it was. I've not had to install an instance of Worpress in over 3 years. Can anyone refresh my memory on any potential advantages/disadvantages to installing Wordpress using Cpanel versus uploading the Wordpress install file, unzipping it, and using the native Wordpress installer?