What programme do i use in my nikon d5000 to operate the remote control when taking pictures
That's up to you. The camera offers two remote modes. The quick-response remote mode fires the shutter when you press the button on the remote. The delayed remote mode gives you two seconds to hide your hand behind your back before firing the shutter.
Full details are in the "Self-Timer and Remote Modes" section of the manual (page 67 in my copy).
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