You should migrate your data files and that's about it. If you don't want to migrate some applications (I can see why you don't!) then do not select them when using the Migration feature in Setup Assistant.
The easiest and most effective method of migrating is to connect your old Mac's Time Machine (or if you use a bootable clone) external HD to the new Mac via a USB cable before turning on the new Mac for the first time. When you start the new Mac it automatically launches Setup Assistant (SA). SA will eventually get to a point where it asks if you are migrating from another Mac. Select yes and then follow the on-screen prompts. It will ask if you want to migrate:
- Data (select yes)
- Settings (select no)
- Applications (select no)
This will ensure all of your data (including your bookmarks, music, movies, books, etc) will migrate. When SA is finished you will find these in the appropriate locations. For example you bookmarks will be in Safari.
All of your legacy applications will then need to be manually installed or downloaded.
Note: if you do not have a Time Machine or bootable clone backup on the old computer this is a HUGE error and you should fix this prior to the new machine arriving.