Are you planning to create your own credit card reader for iPhone / iPod? If so, you may have to go through Apple's Made for iPod (MFi) program. See: http://developer.apple.com/programs/mfi/
If not, your ability to connect the reader to your iOS device is limited. You cannot connect to universal USB or Bluetooth devices. One of the few devices that I know of is the square reader, which is a customizable hardware device that communicates through an audio jack. Perhaps this was due to the large amount of custom audio technology on the Square part; it is not an easy task, and it cannot be done with finished parts.
If you have other plans regarding what type of reader to use, add details to your question!
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