Launcher Tile Question

This one is really quick. It's too general to post in one of those threads.

Anyway, with all of those installers that are launched by a tile, do I have to constantly clear away my tiles in order to launch those applications, or will opening them with the library suffice? 'Cause I still plan to use Kobo's reader.

And as an added question, Will I have a problem with Kobo's file structure if I use Coolreader/Koreader? My library is also mainly consisted of kepubs.