Hi...as per my knowledge the Omega has General Purpose and Watchdog timers that you should be able to use to get the timing down.However, an easier option might be to use the Arduino Dock since the ATmega can very precisely control its output timing with probably less hassle than the above. Then you can use the Omega to send the Arduino chip instructions on what colors to set and the Arduino chip will do all of the low-level stuff.
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RE: Controlling WS2812 device (RGB LED strip)