NEOPIXELS ARE BACK!
I started looking at the neopixel sketch and realized that when the data stream slows down, it is when a threshold below 150 or below 1000 is met for the "clear". Those are the thresholds for activating frunction1 and function2. Although I couldn't tell what was in those functions that would be slowing it down. I posted on the adafruit forums asking for help for my predicament with the neopixel strip. And the solution was simple: put the " strip_a.show();" outside of certain loops.
I realize that my babbling about this on the blog doesn't make any sense without seeing the code, but trust me guys. This will be so cool!
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If you are looking for a summary for my Masters thesis, it is here.