How to reinstall old apps backed up using recovery mgr backup software

I crashed my machine after reloading some .NET framework files.  Since windows no longer loaded, I used the HP Recovery disks and did a full backup to both DVD and USB of my hard drive.  Then I went ahead and let the recovery disks reformat and reload the system to factory.  I went to use recovery manager to re-install all those apps and files, but all it did was copy all the stuff to a folder on my C:\ drive.  SO the dozen or so apps (quicken, genealogy, adobe paintshop & pdf, MS SQL) are not loaded. Yet it appears that my entire system is sitting in a file folder.  Great if I only wanted data, but I really would like to use the apps without reloading it all from scratch.  I did not find any executable files to start such a reload. I was happy with my machine before the crash, and if I could have done a simple recover to before I installed those files, I would have done so instead of the reformat.  Alas, no matter how far back I went, windows was pretty much DOA.
I Have an HP Pavillion with win7. 
Is this a lost cause?
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The HP Recovery software only backs up a specific list of data file types and the folder they reside in. No programs were backed up and even if they were, they wouldn't operate correctly. You will need to reinstall all software that you previously installed.
If you have any further questions, please don't hesitate to ask.
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Frank
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