All there is are chkdsk and scandisk or third party tools like that. The problem is that because you are running Windows you are actually using part of the hard drive in the process.

That is why you get a more reliable result by booting from a CD, thumbdrive, or floppy and running the tool from there.

I believe that some of the boot CDs available have disk tools on them have a look at BartPE and the like.