I'm writing a genome browser designed primarily to view the history of chromosomal rearrangements. Right now the project is a series of proof-of-concept demos written using Processing. At this point if I don't make any radical changes the final application will be a web applet with a gui built of swing components that open PApplets to actually show the rearrangements happening.
My question is: Should I give up on processing and switch over to pure Swing/AWT? This is my first big java project. I'm building in eclipse, but I can use netbeans as well. If I could embed PApplet objects inside a JFrame, for example, that would make my day.