I have a wordpress account and I have been using this http://tympanus.net/codrops/2012/12/11/fullscreen-pageflip-layout/
for sometime now but I want to convert that into wordpress. I know how to do basic site migration but I don’t know about how to convert javascripts and more than one css files
You do not need to convert anything if you have the files(js and css). Short story to move that into wordpress.
Create a new theme, use Enqueue to enque your scripts from functions.php(you can do it from header.php too, but it’s not best practice and it will work slower). You can take a look at this. http://codex.wordpress.org/Function_Reference/wp_enqueue_script and at this http://codex.wordpress.org/Theme_Development for how to create a theme and how should it look.
For home.php or index.php you’ll need a simple query with a counter. The counter is for the css id(item1, item2, etc).