UPDATED: Now themes are independent from application with the use of Actions and Filters :D .. The branch WP-Like is not available for public usage but you may contact me if you want a copy of it.
Partial in name "header", "footer", "alert" and "sidebar" are load and display.
Partial in other name (ex. "navigation", "slider", ...) are load but not display.
Partial in name "header", "footer", "alert" and "sidebar" are load and display. Partial in other name (ex. "navigation", "slider", ...) are load but not display.