So this is really great...there's this free website called GoAnimate.com that allows you to make your own Star Trek animations!! The website has a Flash-based animation platform with premade backgrounds, characters, props, music, special effects and more. It's really easy to use, and really fun.
Sorry, only TOS characters currently
Check it out!
If you have a minute, please check out the first episode of a parody series called "The Bacheluhura":