Some applications were not installed on the iPad because they are not...?

I got this message in iTunes when syncing my iPad: "Some of the applications in your iTunes library, including "Penguin", were not installed on the iPad "Josh's iPad" because they are not compatible with this ipad." The two applications are: "Crazy Penguin Catapult" and "iShoot". It goes on to say that they will not sync because apparently they require a "newer version of iPad software". I have checked and I have the latest versions of iTunes and iPad software. I have also checked my iPad and the 2 applications are actually still there on the iPad and work fine. I searched the app store on my iPad and the 2 applications no longer appear on the iPad app store, but they still appear on the iTunes app store on my computer and on there it says the apps are only compatible with iPhone and iPod Touch. These 2 applications have actually both been updated recently in the past couple of days and synced fine with the iPad before the update.