You can only restore the complete backup, you can't only restore some of the apps. You could either delete the apps from your iPad that you don't want, take a new backup, and restore to that new backup.
Or delete the apps that you don't want from the Apps part of your computer's iTunes library so that the restore can't put them back - none of your iTunes downloads (apps, music, etc), nor you own music and videos in the Music and Videos apps, are included in a backup, a restore looks to pick them up from your iTunes library.
Prior to doing that, have you tried closing apps via the iPad’s multitasking bar and/or doing a soft reset to see if that improves things ? To close apps : double-click the home button to open the taskbar, and then swipe or drag an app's screen from there up and off the top of the screen to close it, and click the home button to close the taskbar when you've finished.
Soft-reset : press and hold both the sleep and home buttons for about 10 to 15 seconds (ignore the red slider), after which the Apple logo should appear - you won't lose any content, it's the iPad equivalent of a rebooth