Iphone Backup Apps aren't there. HELP ASAP

I backed up my iphone 5 to my computer and wiped it to go to the apple store for some help with the battery. I thought that they were going to replace it, but they didn't. Anyway, I had already called support, and they said to back up my iphone before I go in. So, I did. I backed it all up, and the computer said that it backed it up. When I went to reload my original data on there, most of my apps were gone. Only a few remained, outside of the apple apps like contacts, etc. I had really, really criticial data on there, how in the world do I get it back? I had apps like Quickoffice, 1Password, etc that I used every single day, and now they are gone. Need help ASAP!

I did. I downloaded the most important apps that were on my phone with all of the informaiton, and none of my info came back up. The app downloaded no problem, just not what was actually on the app. The important stuff.

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