I usually go for the disk version when available, just because my internet is unbelievably slow. It can take more than a full day, in rare cases even two days, to download one game if it's large.
Games on disk always install to the HDD anyway, so the game performance will be identical regardless of whether you get a digital version or a disk version. Additionally, disk versions of modern games automatically link to your Steam (or other supported DRM) account once installed, meaning even a disk version will stay in your Origin/Uplay/Steam/whatever account if the disk is somehow lost.
Really the only things to consider are:
1. Will the game take longer for you to download than it'll take for you to drive to a store?
2. Are you one of the people who likes having a physical case, or is it just more clutter?