The first step is to scan your documents into your computer. We don't care how they become electronic - they just have to be on your hard drive.
You can use a high performance scanner like the Fujitsu ScanSnap, which can scan 25 double-sided pages per minute. They are FAST. You can use any sort of multi-function printer, like the Canon MX492 with a document feeder. Or you can even use an app on your smartphone, like TinyScan.
Once it's on your computer, FileSimple can help you manage it.