Reinsall fresh OSX keeping all files, apps and settings

I am getting ready to install a fresh copy of OSX 10.9 for a friend on her i mac.  She has 480gb of data mostly doc's and photos and apps.  The os has become very sluggish and is freezing when opening some apps and has become very slow.  I want to verify the correct way to reinstall the OS without losing any of her files.
Now first off as a precaution I have made a full Time Machine backup in-case something goes wrong.  To reinstall the OS I will boot into the recovery partition and just simply reinstall the OS and it will replace the entire OS files but not affect any personal files, apps settings .. Correct ?
Thanks for any help with this issue.

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