The older style of combining animation with live-action is called rotoscoping.
As TylerShads says, the newer method is to dress the actor in a "Capture Suit" which tracks the 3D position (in the room) of various spots on the body.
There is an older method of motion capture, where the actor wears a simple suit of a solid color, and the spots to be tracks are simply dots on the fabric in a contrasting color. This gives the necessary geometric information, but the graphics department must do a lot more work to manually track the points in the camera image.
Yet another method is used in the films This Waking Life and A Scanner Darkly. For these, the live-action was filmed normally and then animation was drawn over the top (using the computer to emulate key-frame animation).
Still other methods were explored for creation of the classic Tron, where they employed a black-screen technique more similar to photographic (darkroom) methods than the others here. Various layers of the digital environment were burned into the same film during multiple passes while dodging the actors. This required the camera to be absolutely still during composite scenes with actors. All-virtual cut-scenes were naturally more dynamic by the use of flying cameras.
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